Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 142 of 250
Found at i:46023227 original size:3 final size:3
Alignment explanation
Indices: 46023219--46023289 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
46023209 GATCACACGT
46023219 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46023267 ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
46023290 TGTTAGAGTT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:46027768 original size:24 final size:24
Alignment explanation
Indices: 46027706--46027769 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
46027696 TTTCTAGAAG
* *
46027706 ATTTAGTA-TTTATGAGTATAATAT
1 ATTTAG-ACTTTATTAGCATAATAT
* *
46027730 ATTTAGCCTTTATTAGCATAATGT
1 ATTTAGACTTTATTAGCATAATAT
46027754 ATTT-GACTTTGATTAG
1 ATTTAGACTTT-ATTAG
46027770 AATTAGGATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
23 5 0.15
24 28 0.85
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.48
Consensus pattern (24 bp):
ATTTAGACTTTATTAGCATAATAT
Found at i:46027931 original size:3 final size:3
Alignment explanation
Indices: 46027923--46027957 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
46027913 TTATTTTCAC
46027923 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
46027958 AACCTCATGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:46033487 original size:19 final size:20
Alignment explanation
Indices: 46033444--46033499 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
46033434 ATTGGGTCTT
46033444 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
46033464 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
46033483 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
46033500 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:46046533 original size:196 final size:196
Alignment explanation
Indices: 46046199--46046589 Score: 755
Period size: 196 Copynumber: 2.0 Consensus size: 196
46046189 ATAATAAAAA
46046199 CACTAAACTTTCATAATCAAGATTAGAATATTAATATGTTTAATTAAAAAAAATTAAGCCAACCA
1 CACTAAACTTTCATAATCAAGATTAGAATATTAATATGTTTAATTAAAAAAAATTAAGCCAACCA
*
46046264 AGGTTGCAACGCCCCAAATACTTTTATATTTTTGAATGAGTATGGTTGTCAGATAAGTTGCCTTA
66 AGGTTGCAACGCCCCAAATACTTTTATATTTTTAAATGAGTATGGTTGTCAGATAAGTTGCCTTA
46046329 GTTTGGTGGTTAAGTGCCTTGGGTGTTCGCTTTAGGTCTTATGTTCGAGTGTTGTTGGGTGTAAA
131 GTTTGGTGGTTAAGTGCCTTGGGTGTTCGCTTTAGGTCTTATGTTCGAGTGTTGTTGGGTGTAAA
46046394 G
196 G
*
46046395 CACTAAACTTTCATAATCAAGATTAGAATATTAATATGTTTAATTAAAAAAAATTAAGCTAACCA
1 CACTAAACTTTCATAATCAAGATTAGAATATTAATATGTTTAATTAAAAAAAATTAAGCCAACCA
*
46046460 AGGTTGCAACGCCCCAAATACTTTTATATTTTTAAATGTGTATGGTTGTCAGATAAGTTGCCTTA
66 AGGTTGCAACGCCCCAAATACTTTTATATTTTTAAATGAGTATGGTTGTCAGATAAGTTGCCTTA
46046525 GTTTGGTGGTTAAGTGCCTTGGGTGTTCGCTTTAGGTCTTATGTTCGAGTGTTGTTGGGTGTAAA
131 GTTTGGTGGTTAAGTGCCTTGGGTGTTCGCTTTAGGTCTTATGTTCGAGTGTTGTTGGGTGTAAA
46046590 TTGTCGAATA
Statistics
Matches: 192, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
196 192 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (196 bp):
CACTAAACTTTCATAATCAAGATTAGAATATTAATATGTTTAATTAAAAAAAATTAAGCCAACCA
AGGTTGCAACGCCCCAAATACTTTTATATTTTTAAATGAGTATGGTTGTCAGATAAGTTGCCTTA
GTTTGGTGGTTAAGTGCCTTGGGTGTTCGCTTTAGGTCTTATGTTCGAGTGTTGTTGGGTGTAAA
G
Found at i:46050226 original size:29 final size:28
Alignment explanation
Indices: 46050194--46050269 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 28
46050184 AGGCACTAGA
46050194 TGCCGGTGATTATAGTATCAAGAACTTTG
1 TGCCGGTG-TTATAGTATCAAGAACTTTG
* * * *
46050223 TGCC-ATGTTATATTTATCAGGTACTTTG
1 TGCCGGTGTTATA-GTATCAAGAACTTTG
* *
46050251 TACTGGTGTTATAGTATCA
1 TGCCGGTGTTATAGTATCA
46050270 GACATTCTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
27 5 0.14
28 21 0.57
29 11 0.30
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (28 bp):
TGCCGGTGTTATAGTATCAAGAACTTTG
Found at i:46050265 original size:56 final size:58
Alignment explanation
Indices: 46050198--46050317 Score: 158
Period size: 57 Copynumber: 2.1 Consensus size: 58
46050188 ACTAGATGCC
* *
46050198 GGTGATTATAGTATCAAGA-ACTT-TGTGCCA-TGTTATATTTATCAGGTACTTTGTACT
1 GGTGATTATAGTATC-AGACA-TTCTATGCCAGTATTATATTTATCAGGTACTTTGTACT
* *
46050255 GGTG-TTATAGTATCAGACATTCTATGCTAGTATTATATTTATTAGGTACTTTGTACT
1 GGTGATTATAGTATCAGACATTCTATGCCAGTATTATATTTATCAGGTACTTTGTACT
46050312 GGTGAT
1 GGTGAT
46050318 GGATACCATA
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
55 5 0.09
56 16 0.29
57 33 0.60
58 1 0.02
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (58 bp):
GGTGATTATAGTATCAGACATTCTATGCCAGTATTATATTTATCAGGTACTTTGTACT
Found at i:46060129 original size:43 final size:44
Alignment explanation
Indices: 46060036--46060161 Score: 143
Period size: 43 Copynumber: 2.9 Consensus size: 44
46060026 GGTTATCAAG
* * *
46060036 ATGTGATTACATGTAAGACCATGTCTGGTACATTGGCAT-TGTA
1 ATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCTGTA
*
46060079 TTGTGATTAT-GTGTAAGACCATGTCTGGGACATTGGCATCCT-TA
1 ATGTGATT-TCGTGTAAGACCATGTCTGGGACATTGGCAT-CTGTA
* * *
46060123 AT-TGATTTCGTGTAAAACCCTGTCTGGGACAGTGGCATC
1 ATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATC
46060162 GATATGTGAT
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
42 2 0.03
43 65 0.92
44 3 0.04
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (44 bp):
ATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCTGTA
Found at i:46062868 original size:16 final size:16
Alignment explanation
Indices: 46062847--46062877 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46062837 TTGTATATAC
*
46062847 ATGAATTGATGATGAG
1 ATGAATTGATAATGAG
46062863 ATGAATTGATAATGA
1 ATGAATTGATAATGA
46062878 TGATATATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (16 bp):
ATGAATTGATAATGAG
Found at i:46065743 original size:15 final size:16
Alignment explanation
Indices: 46065718--46065748 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
46065708 TTAGTTGAGG
46065718 AAAGCAAAAAAAGAAA
1 AAAGCAAAAAAAGAAA
46065734 AAAG-AAAAAAAGAAA
1 AAAGCAAAAAAAGAAA
46065749 CATGGAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAGCAAAAAAAGAAA
Found at i:46069213 original size:16 final size:17
Alignment explanation
Indices: 46069181--46069215 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46069171 AGAAAAACCT
46069181 TTGTTTGTGTAAAATCG
1 TTGTTTGTGTAAAATCG
*
46069198 TTGTTTTTGT-AAATCG
1 TTGTTTGTGTAAAATCG
46069214 TT
1 TT
46069216 TTGACAGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.20, C:0.06, G:0.20, T:0.54
Consensus pattern (17 bp):
TTGTTTGTGTAAAATCG
Found at i:46072328 original size:69 final size:70
Alignment explanation
Indices: 46072212--46072342 Score: 219
Period size: 69 Copynumber: 1.9 Consensus size: 70
46072202 CCAACATATA
* *
46072212 TATTTAGCTAGTAACCAATTGAAGCTACAACACGCCGTCCGATCCTAAGTCTGTA-GTTCACCTG
1 TATTAAGCTAGTAACCAATTGAAGCTACAACACGCCGTCCGATCCTAAGTCTGCAGGTTCACCTG
46072276 AAATG
66 AAATG
* *
46072281 TATTAAGCTAGTAACCAATTGAAGCTACCACACGTCGTCCGATCCTAAGTCTGCAGGTTCAC
1 TATTAAGCTAGTAACCAATTGAAGCTACAACACGCCGTCCGATCCTAAGTCTGCAGGTTCAC
46072343 AACAGAATGT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
69 51 0.89
70 6 0.11
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (70 bp):
TATTAAGCTAGTAACCAATTGAAGCTACAACACGCCGTCCGATCCTAAGTCTGCAGGTTCACCTG
AAATG
Found at i:46073373 original size:18 final size:17
Alignment explanation
Indices: 46073332--46073366 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46073322 ATTTGGTCAA
*
46073332 TTATCTATTTTTATATT
1 TTATTTATTTTTATATT
46073349 TTATTTATTTTTA-ATT
1 TTATTTATTTTTATATT
46073365 TT
1 TT
46073367 TAATTTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTTATTTTTATATT
Found at i:46085734 original size:19 final size:19
Alignment explanation
Indices: 46085697--46085734 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
46085687 ACCAGTCAGA
*
46085697 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
46085716 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
46085735 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:46090843 original size:21 final size:21
Alignment explanation
Indices: 46090825--46091011 Score: 132
Period size: 21 Copynumber: 9.0 Consensus size: 21
46090815 TTTCGTTTAG
* *
46090825 CTCTTACGAGCTTCTGTTTAA
1 CTCTTATGAGCTTCTGTTCAA
* *
46090846 CTCATATGAG-TTTTCGTTCAA
1 CTCTTATGAGCTTCT-GTTCAA
46090867 CTCTT-TCGAGCTTCTGTTCAA
1 CTCTTAT-GAGCTTCTGTTCAA
* * *
46090888 CTC-TATGAGTTTCTATTCAG
1 CTCTTATGAGCTTCTGTTCAA
* *
46090908 CT-TTAATGAGCTTCCGTTTAA
1 CTCTT-ATGAGCTTCTGTTCAA
* * *
46090929 CTCATATGAGTTTATGTTCAA
1 CTCTTATGAGCTTCTGTTCAA
* *
46090950 CTCTTACGAGCTTCTGTTCAG
1 CTCTTATGAGCTTCTGTTCAA
* * * *
46090971 CCCTTAT-AGGTTTCTGTTTAG
1 CTCTTATGA-GCTTCTGTTCAA
*
46090992 CTCTCATGAGCTTCTGTTCA
1 CTCTTATGAGCTTCTGTTCA
46091012 GCTTTCGAGC
Statistics
Matches: 125, Mismatches: 32, Indels: 18
0.71 0.18 0.10
Matches are distributed among these distances:
20 20 0.16
21 100 0.80
22 5 0.04
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (21 bp):
CTCTTATGAGCTTCTGTTCAA
Found at i:46090877 original size:42 final size:42
Alignment explanation
Indices: 46090814--46090967 Score: 181
Period size: 42 Copynumber: 3.7 Consensus size: 42
46090804 CGTGTTTTAC
* *
46090814 TTTTCGTTTAGCTCTTACGAGCTTCTGTTTAACTCATATGAG
1 TTTTCGTTCAACTCTTACGAGCTTCTGTTTAACTCATATGAG
* *
46090856 TTTTCGTTCAACTCTTTCGAGCTTCTGTTCAACTC-TATGAG
1 TTTTCGTTCAACTCTTACGAGCTTCTGTTTAACTCATATGAG
* * * *
46090897 -TTTCTATTCAGCT-TTAATGAGCTTCCGTTTAACTCATATGAG
1 TTTTC-GTTCAACTCTT-ACGAGCTTCTGTTTAACTCATATGAG
46090939 TTTAT-GTTCAACTCTTACGAGCTTCTGTT
1 TTT-TCGTTCAACTCTTACGAGCTTCTGTT
46090968 CAGCCCTTAT
Statistics
Matches: 92, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
40 6 0.07
41 27 0.29
42 54 0.59
43 4 0.04
44 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (42 bp):
TTTTCGTTCAACTCTTACGAGCTTCTGTTTAACTCATATGAG
Found at i:46093665 original size:71 final size:71
Alignment explanation
Indices: 46093540--46093723 Score: 255
Period size: 71 Copynumber: 2.5 Consensus size: 71
46093530 CCGTGTGTGG
* * *
46093540 CACACAGCCTAGCACACAG-GTATGTGACTAGGCCGTGTGAACCCTACACCTTAATATTGCAAGT
1 CACACGGCCTAGCACACAGCGTATG-G-CTTGG-CGTGTGAACCCTACACCTTAATACTGCAAGT
46093604 TAGTATGCT
63 TAGTATGCT
*
46093613 CACACGGCCTAGCACACAGGCGTATGGCTTGGC-TGTGAACCCTGCACCTTAATACTGCAAGTTA
1 CACACGGCCTAGCACACA-GCGTATGGCTTGGCGTGTGAACCCTACACCTTAATACTGCAAGTTA
46093677 GTATGCT
65 GTATGCT
*
46093684 CACACGGCCTAGCACACAAGCGTGTGGCTTGGCCGTGTGA
1 CACACGGCCTAGCACAC-AGCGTATGGCTTGG-CGTGTGA
46093724 CATAAGTTAG
Statistics
Matches: 101, Mismatches: 5, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
71 65 0.64
72 3 0.03
73 26 0.26
74 2 0.02
75 5 0.05
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (71 bp):
CACACGGCCTAGCACACAGCGTATGGCTTGGCGTGTGAACCCTACACCTTAATACTGCAAGTTAG
TATGCT
Found at i:46095977 original size:27 final size:27
Alignment explanation
Indices: 46095925--46095977 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
46095915 TTAATTATGA
**
46095925 ATCAAATAAAATAAAAATTATAAAAAC
1 ATCAAATAAAATAAAAAAAATAAAAAC
*
46095952 ATCATATAAAATAAAATAAAATAAAA
1 ATCAAATAAAATAAAA-AAAATAAAA
46095978 TTCAAAGACC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.23
Consensus pattern (27 bp):
ATCAAATAAAATAAAAAAAATAAAAAC
Found at i:46098539 original size:44 final size:44
Alignment explanation
Indices: 46098489--46098619 Score: 190
Period size: 44 Copynumber: 3.0 Consensus size: 44
46098479 GGCTATATGC
*
46098489 ATAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCGTCATG
1 ATAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCATG
* * *
46098533 ATAAAATAAGTAAGACCATAGTTGAAAGATGCTATGGAATCATG
1 ATAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCATG
* * * *
46098577 ATAAAATGAGTAATACCATATCTAAAAGATGATATGGCATCAT
1 ATAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCAT
46098620 ATGAAACGCA
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 76 1.00
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.25
Consensus pattern (44 bp):
ATAAAATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCATG
Found at i:46098926 original size:99 final size:101
Alignment explanation
Indices: 46098720--46098931 Score: 277
Period size: 99 Copynumber: 2.1 Consensus size: 101
46098710 GGGTTATATT
** *
46098720 GTGTAAGACCATAGTTGAAAGATACTATGACATCATAGATGATCCGCAAGGACATTAAACACAGA
1 GTGTAAGACCATAGCAGAAAGATACTATGACATCATAGATGATCAGCAAGGACATTAAACACAGA
**
46098785 ATAGTTCATCGGGACAGTAATCACAAGGATTACGAG
66 ATAGTTCATCGAAACAGTAATCACAAGGATTACGAG
* * * *
46098821 GTGTAAGACCATAGCAGAAAGATACTATGGCATCGTAGATGATCTATC-GGGACA-T-AACACAG
1 GTGTAAGACCATAGCAGAAAGATACTATGACATCATAGATGATC-AGCAAGGACATTAAACACAG
* ** *
46098883 GATAGTTTGTCGAAACAGTAATCACGAGGATTACGAG
65 AATAGTTCATCGAAACAGTAATCACAAGGATTACGAG
46098920 GTGTAAGACCAT
1 GTGTAAGACCAT
46098932 TGCACAACTA
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
99 50 0.52
100 1 0.01
101 45 0.46
102 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.22
Consensus pattern (101 bp):
GTGTAAGACCATAGCAGAAAGATACTATGACATCATAGATGATCAGCAAGGACATTAAACACAGA
ATAGTTCATCGAAACAGTAATCACAAGGATTACGAG
Found at i:46099391 original size:9 final size:9
Alignment explanation
Indices: 46099372--46099401 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
46099362 CGTCCCATCG
46099372 CTGCT-CAC
1 CTGCTCCAC
46099380 CTGCTCCAC
1 CTGCTCCAC
46099389 CTGCTCCAC
1 CTGCTCCAC
46099398 CTGC
1 CTGC
46099402 AAAGAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.10, C:0.53, G:0.13, T:0.23
Consensus pattern (9 bp):
CTGCTCCAC
Found at i:46100422 original size:3 final size:3
Alignment explanation
Indices: 46100361--46100413 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
46100351 TTTGTTAACT
* *
46100361 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCT- TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
*
46100406 TTA GTA TT
1 TTA TTA TT
46100414 GGTATTATTG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:46100494 original size:22 final size:23
Alignment explanation
Indices: 46100447--46100495 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
46100437 ATCTCTATTC
*
46100447 ATATATACTTATGTATTTTCAAAT
1 ATATATACTTATGTATTATC-AAT
46100471 ATATATATCTTAT-TATTATC-AT
1 ATATATA-CTTATGTATTATCAAT
46100493 ATA
1 ATA
46100496 AGTGCTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 5 0.22
24 13 0.57
25 5 0.22
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATATACTTATGTATTATCAAT
Found at i:46120830 original size:1 final size:1
Alignment explanation
Indices: 46120824--46120851 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
46120814 TTTGCTTCCT
46120824 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
46120852 CTTTGGAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:46122152 original size:44 final size:44
Alignment explanation
Indices: 46122102--46122240 Score: 124
Period size: 44 Copynumber: 3.2 Consensus size: 44
46122092 GACAAAGGAT
46122102 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
** * * * * * *
46122146 CTTGCCTCTT-TCGGTTGTGATA--G-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCT-TTCT-GCAT-TGACAGCGAAGCAGATCGAAGACACAA-AC
* *
46122190 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
46122234 CTTGCCT
1 CTTGCCT
46122241 CTTTCGGTTG
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
42 4 0.06
43 16 0.23
44 27 0.39
45 18 0.26
46 4 0.06
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (44 bp):
CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
Found at i:46122183 original size:43 final size:43
Alignment explanation
Indices: 46122134--46122271 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 43
46122124 GAAGCAGATC
46122134 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
* * * * * ** ** * * *
46122177 GAAGACAAAAGATCTTGCCTTCCTAC-ATTGACAGCGAAGCAGATC
1 GAAGACACAA-ACCTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTT
46122222 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
46122265 GAAGACA
1 GAAGACA
46122272 AAGGATCTTG
Statistics
Matches: 67, Mismatches: 24, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 25 0.37
44 24 0.36
45 18 0.27
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (43 bp):
GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
Found at i:46122237 original size:88 final size:88
Alignment explanation
Indices: 46122088--46122399 Score: 418
Period size: 88 Copynumber: 3.6 Consensus size: 88
46122078 GACAGATCAA
* *
46122088 TGAAGACAAAGGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
46122153 CTTTCGGTTGTGATAGAGCTGGT
66 CTTTCGGTTGTGATAGAGCTGGT
*
46122176 TGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
46122241 CTTTCGGTTGTGATAGAGCTGGT
66 CTTTCGGTTGTGATAGAGCTGGT
* * *
46122264 TGAAGACAAAGGATCTTGCCTT-CTGCATCGACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCA
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCC
** * * * *
46122326 TCCATCGATTG-CAGTGGAGCTAGT
65 TCTTTCGGTTGTGA-TAGAGCTGGT
* ** * *
46122350 TAAAGA-AGTAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGA
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGA
46122400 TAGTAATCCT
Statistics
Matches: 200, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
85 18 0.09
86 51 0.25
87 25 0.12
88 106 0.53
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (88 bp):
TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
CTTTCGGTTGTGATAGAGCTGGT
Found at i:46122282 original size:44 final size:43
Alignment explanation
Indices: 46122146--46122284 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 43
46122136 AGACACAAAC
46122146 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGAC-AAAGAT
* * * ** ** * * * *
46122190 CTTGCCTTCCTAC-ATTGACAGCGAAGCAGATCGAAGACACAA-AC
1 CTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTTGAAGACA-AAGAT
46122234 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAGGAT
1 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAA-GAT
46122278 CTTGCCT
1 CTTGCCT
46122285 TCTGCATCGA
Statistics
Matches: 67, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
42 2 0.03
43 16 0.24
44 32 0.48
45 17 0.25
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (43 bp):
CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAGAT
Found at i:46122634 original size:44 final size:44
Alignment explanation
Indices: 46122441--46122857 Score: 209
Period size: 44 Copynumber: 9.6 Consensus size: 44
46122431 AGCGGATTAA
* * * * *
46122441 AGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGA-TCACAT-C
1 AGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAC
* ** *
46122483 AGG-TCTTATCTCCCTG-AGATTACAGTGGAACAGACCGAAGAAATGC
1 AGGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGA--TTA-AAATAC
* * * * * *
46122529 A-GATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAT
1 AGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGAT-TAAAATAC
* * *
46122573 A--ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
1 AGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAC
* * * ***
46122615 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGA-TCGCAT-C
1 AGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAC
* * ** *
46122657 AGG-TCTTATC-CCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGC
1 AGGATCTTATCTCC-CTGAAGTTACAGTGGAGCAGA-TTAA-AA-TAC
* **
46122703 A-GATCTTATC-CCCTGAAGTTACAGTGGAGCAGATT-GAAGCC
1 AGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAC
* * ** *
46122744 AGAGATCTTATCTCCCCG-AGATTACAGCGGAGCAGA-TCGAAGAC
1 AG-GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAATAC
** * ** * *
46122788 ACTATCCTATCTCCCTGAAGTTACAGTGGAGTGGGTTAAAATAA
1 AGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAC
* *
46122832 AGGATCTTATCTCTCTGAGGTTACAG
1 AGGATCTTATCTCCCTGAAGTTACAG
46122858 CAGAGTAGGC
Statistics
Matches: 283, Mismatches: 67, Indels: 48
0.71 0.17 0.12
Matches are distributed among these distances:
40 3 0.01
41 52 0.18
42 14 0.05
43 66 0.23
44 83 0.29
45 26 0.09
46 38 0.13
47 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
AGGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAC
Found at i:46122645 original size:174 final size:169
Alignment explanation
Indices: 46122380--46122769 Score: 509
Period size: 174 Copynumber: 2.3 Consensus size: 169
46122370 TCCTGCATTA
* * *
46122380 ACAGCGAAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAGGA
1 ACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAAGGA
46122445 TCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCC-CTGAGATTACAGT
66 TCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATC-CCTCTGAGATTACAGT
* *
46122509 GGAACAGACCGAAGAAATGCAGATCTTGTCTCCCTGAGGTT
130 GGAACAGACCGAAGAAATGCAGATCTTATC-CCCTGAAGTT
*
46122550 ACAGCGGAGCAGATCGAAGATA-TAATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAAT
1 ACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGA-TTACAATGGAGCGGA-T----T
* * *
46122613 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCCCTCTGAGGTT
60 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCCCTCTGAGATT
** *
46122678 ACAGTGGAGTAGACCGAAGAATTGCAGATCTTATCCCCTGAAGTT
125 ACAGTGGAACAGACCGAAGAAATGCAGATCTTATCCCCTGAAGTT
* * ** * *
46122723 ACAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTCCCCGAGATTACA
1 ACAGCGGAGCAGATCGAAGATAGTA-ATCCTATCTCCCTGAGATTACA
46122770 GCGGAGCAGA
Statistics
Matches: 192, Mismatches: 18, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
168 1 0.01
169 30 0.16
170 21 0.11
173 30 0.16
174 109 0.57
175 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (169 bp):
ACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAAGGA
TCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCCCTCTGAGATTACAGTG
GAACAGACCGAAGAAATGCAGATCTTATCCCCTGAAGTT
Found at i:46122708 original size:87 final size:86
Alignment explanation
Indices: 46122443--46122814 Score: 301
Period size: 87 Copynumber: 4.3 Consensus size: 86
46122433 CGGATTAAAG
* * * *
46122443 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAG
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
*
46122508 TGGAACAGACCGAAGAAATGCA
66 TGGAGCAGACCGAAG-AATGCA
* * ** * ** * *
46122530 GATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCG--CATCA-GGTCTTATCTCCCTGAGGTTA
* ** **
46122594 CAGTGGAGCGGA-TTAA-AATAAA
63 CAGTGGAGCAGACCGAAGAATGCA
* *
46122616 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATC-CCTCTGAGGTTAC
1 -GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCC-CTGAGGTTAC
*
46122680 AGTGGAGTAGACCGAAGAATTGCA
64 AGTGGAGCAGACCGAAGAA-TGCA
* * * * * *
46122704 GATCTTATC-CCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCCGAGATTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCA-TCAG-G-TCTTATCTCCCTGAGGTTA
* *
46122768 CAGCGGAGCAGATCGAAG-A--CA
63 CAGTGGAGCAGACCGAAGAATGCA
* *
46122789 CTATCCTATCTCCCTGAAGTTACAGT
1 -GATCTTATCTCCCTGAAGTTACAGT
46122815 GGAGTGGGTT
Statistics
Matches: 221, Mismatches: 49, Indels: 30
0.74 0.16 0.10
Matches are distributed among these distances:
84 2 0.01
85 28 0.13
86 37 0.17
87 88 0.40
88 7 0.03
89 57 0.26
90 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (86 bp):
GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
TGGAGCAGACCGAAGAATGCA
Found at i:46122712 original size:46 final size:44
Alignment explanation
Indices: 46122443--46122818 Score: 228
Period size: 43 Copynumber: 8.7 Consensus size: 44
46122433 CGGATTAAAG
* * * * *
46122443 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATC--A-CATCA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATCA
* *
46122484 GGTCTTATCTCCCTG-AGATTACAGTGGAACAGACCGAAGAAATGCA
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGACCGAAG-AAT-CA
* * * *
46122530 GATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAT-A
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGA-ATCA
* * ** *
46122574 -ATCCTATCTCCCTGAAGTTACAGTGGAGCGGA-TTAA-AATAAA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAAT-CA
* * * * *
46122616 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GCATCA
1 -GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATCA
* * *
46122658 GGTCTTATC-CCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCA
1 GATCTTATCTCC-CTGAAGTTACAGTGGAGCAGACCGAAGAA-T-CA
** * *
46122704 GATCTTATC-CCCTGAAGTTACAGTGGAGCAGATTGAAGCCA-GA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAG-AATCA
* * *
46122747 GATCTTATCTCCCCG-AGATTACAGCGGAGCAGATCGAAG-A-CA
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGACCGAAGAATCA
* *
46122789 CTATCCTATCTCCCTGAAGTTACAGTGGAG
1 -GATCTTATCTCCCTGAAGTTACAGTGGAG
46122819 TGGGTTAAAA
Statistics
Matches: 261, Mismatches: 49, Indels: 48
0.73 0.14 0.13
Matches are distributed among these distances:
40 5 0.02
41 55 0.21
42 6 0.02
43 64 0.25
44 55 0.21
45 27 0.10
46 48 0.18
47 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (44 bp):
GATCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATCA
Found at i:46123268 original size:9 final size:9
Alignment explanation
Indices: 46123249--46123278 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
46123239 CGTCCCATCG
46123249 CTGCT-CAC
1 CTGCTCCAC
46123257 CTGCTCCAC
1 CTGCTCCAC
46123266 CTGCTCCAC
1 CTGCTCCAC
46123275 CTGC
1 CTGC
46123279 AAAGAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.10, C:0.53, G:0.13, T:0.23
Consensus pattern (9 bp):
CTGCTCCAC
Found at i:46124298 original size:3 final size:3
Alignment explanation
Indices: 46124237--46124289 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
46124227 TTTGTTAACT
* *
46124237 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TCT- TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
*
46124282 TTA GTA TT
1 TTA TTA TT
46124290 GGTATTATTG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:46124370 original size:22 final size:23
Alignment explanation
Indices: 46124323--46124371 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
46124313 ATCTCTATTC
*
46124323 ATATATACTTATGTATTTTCAAAT
1 ATATATACTTATGTATTATC-AAT
46124347 ATATATATCTTAT-TATTATC-AT
1 ATATATA-CTTATGTATTATCAAT
46124369 ATA
1 ATA
46124372 AGTGCTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 5 0.22
24 13 0.57
25 5 0.22
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATATACTTATGTATTATCAAT
Found at i:46126375 original size:22 final size:22
Alignment explanation
Indices: 46126347--46126391 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
46126337 CAAATTTGAG
46126347 AAGGTTTCAAAAGGGTAAACTA
1 AAGGTTTCAAAAGGGTAAACTA
46126369 AAGGTTTCAAAAGGGTAAACTA
1 AAGGTTTCAAAAGGGTAAACTA
46126391 A
1 A
46126392 GGAAATTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.22
Consensus pattern (22 bp):
AAGGTTTCAAAAGGGTAAACTA
Found at i:46132963 original size:22 final size:22
Alignment explanation
Indices: 46132938--46132982 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
46132928 AATCGTCCCA
*
46132938 TCTATGGCATTGAGCCGTCCTG
1 TCTACGGCATTGAGCCGTCCTG
* *
46132960 TCTACGGCGTTGAGCTGTCCTG
1 TCTACGGCATTGAGCCGTCCTG
46132982 T
1 T
46132983 TGACTTAGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.11, C:0.27, G:0.29, T:0.33
Consensus pattern (22 bp):
TCTACGGCATTGAGCCGTCCTG
Found at i:46133517 original size:32 final size:32
Alignment explanation
Indices: 46133476--46133540 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
46133466 TTTTACTTTC
46133476 TTTTAAGTTATCTATTTACAAGTACTTATATT
1 TTTTAAGTTATCTATTTACAAGTACTTATATT
*
46133508 TTTTAAGTTATCTATTTACATGTACTTATATT
1 TTTTAAGTTATCTATTTACAAGTACTTATATT
46133540 T
1 T
46133541 GATCTGGGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.55
Consensus pattern (32 bp):
TTTTAAGTTATCTATTTACAAGTACTTATATT
Found at i:46137306 original size:5 final size:5
Alignment explanation
Indices: 46137296--46137390 Score: 68
Period size: 5 Copynumber: 17.8 Consensus size: 5
46137286 AAGCTAATTG
* *
46137296 TAAAA TAAAA TAAAAA TAAAA CAAAA -AAAA GTAAAAA GAAAA TAAAA
1 TAAAA TAAAA T-AAAA TAAAA TAAAA TAAAA -T-AAAA TAAAA TAAAA
* *
46137343 TAAAA TATTAAA TAAAA CAAAA TAAGAA -ATAA TAATAA TAATAA TAAA
1 TAAAA TA--AAA TAAAA TAAAA TAA-AA TAAAA TAA-AA TAA-AA TAAA
46137391 GAATAATAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
4 6 0.08
5 41 0.55
6 18 0.24
7 9 0.12
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:46137355 original size:17 final size:17
Alignment explanation
Indices: 46137335--46137425 Score: 76
Period size: 17 Copynumber: 5.1 Consensus size: 17
46137325 AGTAAAAAGA
*
46137335 AAATAAAATAAAATATT
1 AAATAAAATAAAATAAT
* *
46137352 AAATAAAACAAAATAAG
1 AAATAAAATAAAATAAT
46137369 AAATAATAATAATAATAAT
1 AAATAA-AATAA-AATAAT
* *
46137388 AAAGAATAATAATATAAT
1 AAATAA-AATAAAATAAT
*
46137406 -AATAATAGTAATAATAAT
1 AAATAA-AATAA-AATAAT
46137424 AA
1 AA
46137426 GCATGATAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
17 29 0.48
18 14 0.23
19 17 0.28
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.26
Consensus pattern (17 bp):
AAATAAAATAAAATAAT
Found at i:46137365 original size:22 final size:21
Alignment explanation
Indices: 46137297--46137367 Score: 90
Period size: 21 Copynumber: 3.3 Consensus size: 21
46137287 AGCTAATTGT
46137297 AAAATAAAATAAAAATAAAAC
1 AAAATAAAATAAAAATAAAAC
* *
46137318 AAAA-AAAAGTAAAAAGAAAAT
1 AAAATAAAA-TAAAAATAAAAC
*
46137339 AAAATAAAATATTAAATAAAAC
1 AAAATAAAATA-AAAATAAAAC
46137361 AAAATAA
1 AAAATAA
46137368 GAAATAATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
20 4 0.10
21 20 0.48
22 18 0.43
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (21 bp):
AAAATAAAATAAAAATAAAAC
Found at i:46137378 original size:3 final size:3
Alignment explanation
Indices: 46137370--46137583 Score: 180
Period size: 3 Copynumber: 70.7 Consensus size: 3
46137360 CAAAATAAGA
* *
46137370 AAT AAT AAT AAT AAT AAT AAAG AAT AAT AAT -AT AAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
46137415 AAT AAT AAT AAG CAT GAT AAT AAT AAT ATT ATT AAT AAT AAG AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * **
46137463 GAT AAT AGT AAT AAA AAT AAA AAT AAT AGT AAT AAT AAT GGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * **
46137511 AAAT AGT AAT GAT AAT -AT ATT AAT AAG AAT AAC AAT AAGGT GTT AAT
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA--T AAT AAT
46137558 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
46137584 ATTAATTAAT
Statistics
Matches: 164, Mismatches: 41, Indels: 12
0.76 0.19 0.06
Matches are distributed among these distances:
2 4 0.02
3 154 0.94
4 5 0.03
5 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:46138657 original size:17 final size:17
Alignment explanation
Indices: 46138635--46138672 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
46138625 ATATTGGGCT
46138635 GTTTGGGATTG-GGTTTA
1 GTTTGGG-TTGAGGTTTA
46138652 GTTTGGGTTGATGGTTTA
1 GTTTGGGTTGA-GGTTTA
46138670 GTT
1 GTT
46138673 GGGCTTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.16
17 7 0.37
18 9 0.47
ACGTcount: A:0.11, C:0.00, G:0.39, T:0.50
Consensus pattern (17 bp):
GTTTGGGTTGAGGTTTA
Found at i:46139277 original size:51 final size:45
Alignment explanation
Indices: 46139108--46140147 Score: 339
Period size: 44 Copynumber: 22.8 Consensus size: 45
46139098 TAACTTGTGG
* * * *
46139108 CTTCAATTTGTTCCACTGCAACTTCAGGGAAATAAGACTT-G-TTT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGCTAT
* * * * *
46139152 CTTTAACCCGCTCCACTGTAACTTCAGGGAGATAAGGTCT-GCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TAGCTAT
* **
46139197 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTATAATTTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-AGCTAT
* * *
46139246 AGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTAT
* *
46139293 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAGTT-G-TTT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGCTAT
* ** * * * * *
46139337 TTTCACCCTGCTCCATTACAACTTCAGGGAGACAAGGTTTG-T-T
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTAT
* * ** * * *
46139380 -TT-GATCTGTTATACTGCAACTTCAGAGAAATAAGATTTGTCATCAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-C-T-AT
* * * * * * * *
46139426 AGCTTCAACCTGTTCCATTGCAATTTCAAGAAAATAAGATTCGCTAT
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTAT
* ** * *
46139473 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGGCT-GATAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTAT
* * * *
46139517 CTTCAATCTGCTCCACTGAAACTTTAGGAAGATAAGATTCGCCATAGTTTGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-C-TA-----T
* * * * * * * *
46139569 AGCTTTAATCTACTCCACTGTAACATCAGGGAAATAAGATTCGATGT
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTAT
** * * * * * **
46139616 CTTCAGCCTACTCCGCTGCAACTTTAGGGAGATAAGGTT-GGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTAT
* * * * *
46139660 CTCCAATCTGCTTCGCTGCAACTTCAGGAAGATAAGATTCA-CCAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-AGCTAT
* * * * * * * *
46139705 ATTCGATCT-ATTCACTGCAACTTCAGAGAGATAAAACTTGACATGGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TT---A-GCTAT
* * * * * *
46139754 CTTCAATATGC-CCTACTACAACTTCAGGGGGACAAGATTTGTTTAT
1 CTTCAATCTGCTCC-ACTGCAACTTCAGGGAGATAAGATTAG-CTAT
* * * * * **
46139800 ATTTAACCTGCTCCACTGCAACTTCAGAGG-GATAAGGTTTG-TCG
1 CTTCAATCTGCTCCACTGCAACTTCAG-GGAGATAAGATTAGCTAT
* * * *
46139844 CTTTC-ATCTACTCCACTGTAACTTCAGAGAGATAAGATTCGTCATGAT
1 C-TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-C-T-AT
* * * *
46139892 AACTTCAATCTGCTCCACTGAAACTTCAAGGAGATAAAACTT-G-TAA
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGCTAT
* * *
46139938 CTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGGTT---T-T
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTAT
* * * * **
46139979 CTAT-GATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATAATTTAT
1 CT-TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-AGCTAT
** * *
46140028 AACTTCAATCTATTCCACT---A---CAAGGAAATAAGATTCA-CTAT
1 --CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-AGCTAT
* * * *
46140069 CTTCAATCTTCTCTACTGCAACTTCAGTGAGATAAGACTT---TAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGCTAT
* *
46140112 CTTCAACCTGCTCCACTGCTACTTCAGGGAGATAAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
46140148 GTTTGTTGTG
Statistics
Matches: 737, Mismatches: 189, Indels: 141
0.69 0.18 0.13
Matches are distributed among these distances:
39 14 0.02
41 58 0.08
42 7 0.01
43 42 0.06
44 219 0.30
45 161 0.22
46 36 0.05
47 18 0.02
48 4 0.01
49 21 0.03
50 75 0.10
51 47 0.06
52 1 0.00
54 34 0.05
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTAT
Found at i:46139292 original size:96 final size:94
Alignment explanation
Indices: 46139108--46139508 Score: 321
Period size: 96 Copynumber: 4.4 Consensus size: 94
46139098 TAACTTGTGG
* * * * * * *
46139108 CTTCAATTTGTTCCACTGCAACTTCAGGGAAATAAGA-CTT-GTT-T--CTTTAACCCGCTCCAC
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTATTTATAGCTTCAACCTGTTCCAC
* * *
46139168 TGTAACTTCAGGGAGATAAG-GTCTGCTAT
66 TGCAACTTCAGGGAAATAAGATTC-GCTAT
* *
46139197 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTATAATTTATAGCTTCAATCTGTTCC
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-T-ATTTATAGCTTCAACCTGTTCC
46139262 ACTGCAACTTCAGGGAAATAAGATTCGCTAT
64 ACTGCAACTTCAGGGAAATAAGATTCGCTAT
* * * * * *
46139293 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-GTTGTTT-T---TTCACCCTGCTCCAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTATTTATAGCTTCAACCTGTTCCAC
* * * * *
46139353 TACAACTTCAGGGAGACAAGGTTTG-T-T
66 TGCAACTTCAGGGAAATAAGATTCGCTAT
* * ** * * * *
46139380 -TT-GATCTGTTATACTGCAACTTCAGAGAAATAAGAT-TTGTCATCATAGCTTCAACCTGTTCC
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTAT--TTATAGCTTCAACCTGTTCC
* * * *
46139442 ATTGCAATTTCAAGAAAATAAGATTCGCTAT
64 ACTGCAACTTCAGGGAAATAAGATTCGCTAT
*
46139473 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
46139509 GCTGATAGCT
Statistics
Matches: 243, Mismatches: 50, Indels: 32
0.75 0.15 0.10
Matches are distributed among these distances:
85 30 0.12
86 2 0.01
87 2 0.01
88 2 0.01
89 64 0.26
90 2 0.01
91 31 0.13
92 2 0.01
93 6 0.02
94 4 0.02
95 26 0.11
96 70 0.29
97 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (94 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTATTTATAGCTTCAACCTGTTCCAC
TGCAACTTCAGGGAAATAAGATTCGCTAT
Found at i:46139348 original size:140 final size:140
Alignment explanation
Indices: 46139107--46139368 Score: 350
Period size: 140 Copynumber: 1.9 Consensus size: 140
46139097 GTAACTTGTG
* * * *
46139107 GCTTCAATTTGTTCCACTGCAACTTCAGGGAAATAAGACTTGTTTCTTTAACCCGCTCCACTGTA
1 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGACTTGTATCTTCAACCCGCTCCACTGCA
* * *
46139172 ACTTCAGGGAGATAAGGTCTGCTATCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATCT
66 ACTTCAGGGAGATAAGGTCTGCTATCTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGATCT
46139237 ATAATTTATA
131 ATAATTTATA
** *
46139247 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTCGCTATCTTCAGTCTGCTCCACTG
1 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGACTT-G-TATCTTCAACCCGCTCCACTG
* * * *
46139311 CAACTTCAGGGAGATAAGAGT-TG-TTTTTTCACCCTGCTCCATTACAACTTCAGGGAGA
64 CAACTTCAGGGAGATAAG-GTCTGCTATCTTCAACCTGCTCCACTACAACTTCAGGGAGA
46139369 CAAGGTTTGT
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
139 2 0.02
140 66 0.63
141 35 0.33
142 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (140 bp):
GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGACTTGTATCTTCAACCCGCTCCACTGCA
ACTTCAGGGAGATAAGGTCTGCTATCTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGATCT
ATAATTTATA
Found at i:46139470 original size:180 final size:185
Alignment explanation
Indices: 46139108--46139508 Score: 499
Period size: 180 Copynumber: 2.2 Consensus size: 185
46139098 TAACTTGTGG
* * * **
46139108 CTTCAATTTGTTCCACTGCAACTTCAGGGAAATAAGACTTGTTTCTTTAACCCGCTCCACTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTTCTTTAACCCGCTCCACTACAA
* * * * *
46139173 CTTCAGGGAGATAAGGTCTGCTATCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTA
66 CTTCAGGGAGACAAGGTCTGCTATCTTCAATCTGCTACACTGCAACTTCAGAGAAATAAGATCTA
* * * *
46139238 TAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
131 TAATTCATAGCTTCAACCTGTTCCACTGCAACTTCAAGAAAATAAGATTCGCTAT
* * * *
46139293 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTTT-TTTCACCCTGCTCCATTACA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTTCTTTAACCC-GCTCCACTACA
* * * * *
46139357 ACTTCAGGGAGACAAGGTTTG-T-T-TT-GATCTGTTATACTGCAACTTCAGAGAAATAAGATTT
65 ACTTCAGGGAGACAAGGTCTGCTATCTTCAATCTGCTACACTGCAACTTCAGAGAAATAAGATCT
* * * *
46139418 GTCA-TCATAGCTTCAACCTGTTCCATTGCAATTTCAAGAAAATAAGATTCGCTAT
130 ATAATTCATAGCTTCAACCTGTTCCACTGCAACTTCAAGAAAATAAGATTCGCTAT
*
46139473 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
46139509 GCTGATAGCT
Statistics
Matches: 186, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
180 79 0.42
181 30 0.16
182 2 0.01
183 1 0.01
184 8 0.04
185 66 0.35
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (185 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTTCTTTAACCCGCTCCACTACAA
CTTCAGGGAGACAAGGTCTGCTATCTTCAATCTGCTACACTGCAACTTCAGAGAAATAAGATCTA
TAATTCATAGCTTCAACCTGTTCCACTGCAACTTCAAGAAAATAAGATTCGCTAT
Found at i:46140309 original size:181 final size:175
Alignment explanation
Indices: 46139894--46140334 Score: 537
Period size: 181 Copynumber: 2.5 Consensus size: 175
46139884 GTCATGATAA
* * * * * *
46139894 CTTCAATCTGCTCCACTGAAACTTCAAGGAGATAAAACTTGTAACTTCAATCTGCTCCACTACAA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTT-TAACTTCAACCTGCTCCACTACTA
*
46139959 CTTTAGGGAGATAAGGTTT-TCTATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATAA
65 CTTCAGGGAGATAAGGTTTGTCTATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATAA
46140023 TTTATAACTTCAATCTATTCCACTACAAGGAAATAAGATTCACTAT
130 TTTATAACTTCAATCTATTCCACTACAAGGAAATAAGATTCACTAT
* * * *
46140069 CTTCAATCTTCTCTACTGCAACTTCAGTGAGATAAGACTTTAACTTCAACCTGCTCCACTGCTAC
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTACTAC
* * * * * *
46140134 TTCAGGGAGATAAGGTTTGT-TGTGATCTGCTCTACTATAACTTCAGAGGGATAATATCTGTTTA
66 TTCAGGGAGATAAGGTTTGTCTATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCT-ATAA
* * * * *
46140198 TTTATAGCTTTC-ATCTATTCGATTGCAACTTCAGGGAAATGAGATTCGCTAT
130 TTTATAAC-TTCAATCTATTC-----C-ACTACAAGGAAATAAGATTCACTAT
* ** * *
46140250 CTTCAGTCTACTCCACTGTGATTTCAGGGAGATAAGACTTTAACTTTAACCTGCTCCACTACTAC
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTACTAC
46140315 TTCAGGGAGATAAGGTTTGT
66 TTCAGGGAGATAAGGTTTGT
46140335 GGATTCACCG
Statistics
Matches: 227, Mismatches: 30, Indels: 12
0.84 0.11 0.04
Matches are distributed among these distances:
174 74 0.33
175 52 0.23
176 3 0.01
180 1 0.00
181 97 0.43
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.34
Consensus pattern (175 bp):
CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTACTAC
TTCAGGGAGATAAGGTTTGTCTATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATAAT
TTATAACTTCAATCTATTCCACTACAAGGAAATAAGATTCACTAT
Found at i:46142543 original size:28 final size:29
Alignment explanation
Indices: 46142490--46142561 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 29
46142480 TTGTATGACT
*
46142490 ATGAATGTGATTGGGCTTGATGGGCCA-C
1 ATGAATGTGATTGGGCTCGATGGGCCATC
*
46142518 ATGAATGTGATTAGGG-TCGATTGGCCATC
1 ATGAATGTGATT-GGGCTCGATGGGCCATC
*
46142547 -TGAATGAGATTGGGC
1 ATGAATGTGATTGGGC
46142562 CAAAAGGGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
27 3 0.08
28 31 0.82
29 4 0.11
ACGTcount: A:0.24, C:0.12, G:0.35, T:0.29
Consensus pattern (29 bp):
ATGAATGTGATTGGGCTCGATGGGCCATC
Found at i:46149812 original size:16 final size:16
Alignment explanation
Indices: 46149775--46149812 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
46149765 CCGGCAAATC
46149775 TTGAAATGCCAAAAAG
1 TTGAAATGCCAAAAAG
**
46149791 CCGAAATGCCAAAAAG
1 TTGAAATGCCAAAAAG
46149807 TTGAAA
1 TTGAAA
46149813 GTTTAGCTAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.16, G:0.18, T:0.16
Consensus pattern (16 bp):
TTGAAATGCCAAAAAG
Found at i:46150079 original size:28 final size:29
Alignment explanation
Indices: 46150026--46150097 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 29
46150016 TTGTATGACT
*
46150026 ATGAATGTGATTGGGCTTGATGGGCCA-C
1 ATGAATGTGATTGGGCTCGATGGGCCATC
*
46150054 ATGAATGTGATTAGGG-TCGATTGGCCATC
1 ATGAATGTGATT-GGGCTCGATGGGCCATC
*
46150083 -TGAATGAGATTGGGC
1 ATGAATGTGATTGGGC
46150098 CTAAAGGGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
27 3 0.08
28 31 0.82
29 4 0.11
ACGTcount: A:0.24, C:0.12, G:0.35, T:0.29
Consensus pattern (29 bp):
ATGAATGTGATTGGGCTCGATGGGCCATC
Found at i:46151169 original size:17 final size:18
Alignment explanation
Indices: 46151136--46151169 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46151126 TCTTTTAAAG
46151136 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
46151154 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
46151170 CTTTAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:46151866 original size:21 final size:21
Alignment explanation
Indices: 46151842--46151894 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
46151832 GGCCTCTCTA
46151842 TTTTCTC-TTTCTTTTTCTTTT
1 TTTTCTCTTTTC-TTTTCTTTT
*
46151863 TTTTTTCTTTTCTTTTC-TTT
1 TTTTCTCTTTTCTTTTCTTTT
46151883 TTTTCTTCTTTT
1 TTTTC-TCTTTT
46151895 TTTGAGGACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.25
21 17 0.61
22 4 0.14
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTCTCTTTTCTTTTCTTTT
Found at i:46151875 original size:16 final size:16
Alignment explanation
Indices: 46151849--46151897 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
46151839 CTATTTTCTC
46151849 TTTCTTTTTCTTTTTTT
1 TTTC-TTTTCTTTTTTT
46151866 TTTCTTTTCTTTTCTTT
1 TTTCTTTTCTTTT-TTT
*
46151883 TTT-TCTTCTTTTTTT
1 TTTCTTTTCTTTTTTT
46151898 GAGGACTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 3 0.10
16 17 0.57
17 10 0.33
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTCTTTTCTTTTTTT
Found at i:46151884 original size:11 final size:11
Alignment explanation
Indices: 46151842--46151894 Score: 65
Period size: 11 Copynumber: 4.8 Consensus size: 11
46151832 GGCCTCTCTA
46151842 TTTTCTCTTTCT
1 TTTTCT-TTTCT
*
46151854 TTTTCTTTTTT
1 TTTTCTTTTCT
46151865 TTTTCTTTTC-
1 TTTTCTTTTCT
46151875 TTTTCTTTT-T
1 TTTTCTTTTCT
46151885 TTCTTCTTTT
1 TT-TTCTTTT
46151895 TTTGAGGACT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
10 11 0.30
11 20 0.54
12 6 0.16
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:46151895 original size:11 final size:10
Alignment explanation
Indices: 46151842--46151897 Score: 67
Period size: 10 Copynumber: 5.4 Consensus size: 10
46151832 GGCCTCTCTA
*
46151842 TTTTCTCTTT
1 TTTTTTCTTT
*
46151852 CTTTTTCTTTT
1 TTTTTTC-TTT
46151863 TTTTTTCTTT
1 TTTTTTCTTT
*
46151873 TCTTTTCTTT
1 TTTTTTCTTT
46151883 TTTTCTTCTTT
1 TTTT-TTCTTT
46151894 TTTT
1 TTTT
46151898 GAGGACTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
10 20 0.51
11 19 0.49
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:46152431 original size:10 final size:9
Alignment explanation
Indices: 46152416--46152440 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
46152406 TTCCCCATGA
46152416 TTTTTTTAT
1 TTTTTTTAT
46152425 TTTTTTTAT
1 TTTTTTTAT
46152434 TTTTTTT
1 TTTTTTT
46152441 GCCTCAACTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:46157490 original size:16 final size:16
Alignment explanation
Indices: 46157469--46157565 Score: 72
Period size: 16 Copynumber: 5.9 Consensus size: 16
46157459 AAGCTAATTG
46157469 TAAAAT-AAAATAAAAA
1 TAAAATAAAAAT-AAAA
46157485 TAAAATAAAAATAAAA
1 TAAAATAAAAATAAAA
*
46157501 CAAAATAAGAAATAATAA
1 TAAAATAA-AAATAA-AA
*
46157519 TAATAATAATAATAATAA
1 TAA-AATAAAAATAA-AA
* * *
46157537 -AGAATAAGAATAATA
1 TAAAATAAAAATAAAA
* *
46157552 TAATATAATAATAA
1 TAAAATAAAAATAA
46157566 TAGTAATAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
15 1 0.01
16 37 0.55
17 12 0.18
18 12 0.18
19 5 0.07
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (16 bp):
TAAAATAAAAATAAAA
Found at i:46157519 original size:3 final size:3
Alignment explanation
Indices: 46157472--46157733 Score: 198
Period size: 3 Copynumber: 88.3 Consensus size: 3
46157462 CTAATTGTAA
* * * *
46157472 AAT AA- AAT AAA AAT AA- AAT AAA AAT AA- AAC AA- AAT AAGA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
* *
46157514 AAT AAT AAT AAT AAT AAT AAT AAAG AAT AAG AAT AAT -AT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
46157558 AAT AAT AAT AGT AAT AAT AAT AAG CAT GAT AAT AAT AAT ATT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
46157606 AAG AAT AAT GAT AAT GAT AAT AAT AAT AAT AAT AAT AA- AAGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
* ** * * *
46157651 AGT AAT AAT AAT GGT AAT AAT AAAT AGT AAT GAT AAT ATAT AAT AAG
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT A-AT AAT AAT
* * ** *
46157698 AAT AAC AAT AAT -GT GTT CAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
46157734 TTATTATTAA
Statistics
Matches: 202, Mismatches: 44, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
2 15 0.07
3 175 0.87
4 12 0.06
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:46158386 original size:11 final size:9
Alignment explanation
Indices: 46158357--46158395 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
46158347 ATATTTCGAA
46158357 AAGGAAAAG
1 AAGGAAAAG
46158366 AAGGAAAAG
1 AAGGAAAAG
46158375 AAGGAAAA-
1 AAGGAAAAG
46158383 AA-GAAAA-
1 AAGGAAAAG
46158390 AAGGAA
1 AAGGAA
46158396 TGAAACTACC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.24
8 5 0.17
9 17 0.59
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (9 bp):
AAGGAAAAG
Found at i:46159832 original size:29 final size:30
Alignment explanation
Indices: 46159766--46159847 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 30
46159756 AACTATAAAA
*
46159766 ATTATACATGAATTTTGATTTAATGTGTAAT
1 ATTATACATAAATTTTGATTT-ATGTGTAAT
* *
46159797 ATCATACATAAACTTTGATTT-TGTGTAAT
1 ATTATACATAAATTTTGATTTATGTGTAAT
*
46159826 TTTATACATAAAATTTTGATTT
1 ATTATACAT-AAATTTTGATTT
46159848 GATTTAATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 15 0.34
30 11 0.25
31 18 0.41
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (30 bp):
ATTATACATAAATTTTGATTTATGTGTAAT
Found at i:46159856 original size:30 final size:29
Alignment explanation
Indices: 46159767--46159858 Score: 87
Period size: 30 Copynumber: 3.1 Consensus size: 29
46159757 ACTATAAAAA
* * *
46159767 TTATACATGAATTTTGATTTAATGTGTAATA
1 TTATACATAAATTTTGATTTGAT-T-TAATT
* * *
46159798 TCATACATAAACTTTGATTTTG-TGTAATT
1 TTATACATAAATTTTGA-TTTGATTTAATT
46159827 TTATACATAAAATTTTGATTTGATTTAATT
1 TTATACAT-AAATTTTGATTTGATTTAATT
46159857 TT
1 TT
46159859 TATAAACCAT
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
29 15 0.31
30 16 0.33
31 15 0.31
32 3 0.06
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (29 bp):
TTATACATAAATTTTGATTTGATTTAATT
Found at i:46161191 original size:28 final size:28
Alignment explanation
Indices: 46161150--46161270 Score: 129
Period size: 28 Copynumber: 4.2 Consensus size: 28
46161140 TAGGGTTAAT
46161150 GATTTTAGAGAAAATAAATT-AGGTTTTAGG
1 GATTTTA-A-AAAATAAATTAAGG-TTTAGG
46161180 GATTTTAAAAAATAAATTAAGGTTT-GTG
1 GATTTTAAAAAATAAATTAAGGTTTAG-G
* * *
46161208 GTTTTTAAAAAATAACTTACGGTTTAGG
1 GATTTTAAAAAATAAATTAAGGTTTAGG
* * *
46161236 GATTTTTAAAAATAAATTCATGTTTAGG
1 GATTTTAAAAAATAAATTAAGGTTTAGG
*
46161264 GGTTTTA
1 GATTTTA
46161271 GTGTTTTTGT
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
27 1 0.01
28 64 0.83
29 5 0.06
30 7 0.09
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.40
Consensus pattern (28 bp):
GATTTTAAAAAATAAATTAAGGTTTAGG
Found at i:46161270 original size:56 final size:56
Alignment explanation
Indices: 46161160--46161270 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 56
46161150 GATTTTAGAG
*
46161160 AAAATAAATTAGGTTTTAGGGATTTTAAAAAATAAATTAAGGTTTGTGGTTTTTAA
1 AAAATAAATTAGGTTTTAGGGATTTTAAAAAATAAATTAAGGTTTGTGGGTTTTAA
* * * *
46161216 AAAATAACTTACGG-TTTAGGGATTTTTAAAAATAAATTCATGTTTAG-GGGTTTTA
1 AAAATAAATTA-GGTTTTAGGGATTTTAAAAAATAAATTAAGGTTT-GTGGGTTTTA
46161271 GTGTTTTTGT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
56 45 0.94
57 3 0.06
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.41
Consensus pattern (56 bp):
AAAATAAATTAGGTTTTAGGGATTTTAAAAAATAAATTAAGGTTTGTGGGTTTTAA
Found at i:46161636 original size:125 final size:127
Alignment explanation
Indices: 46161465--46161769 Score: 415
Period size: 127 Copynumber: 2.4 Consensus size: 127
46161455 GATGCTTTGT
* ** **
46161465 TGCACTGTTAGCAAAAGTACT-AACAAAGCTCTCAGCTGGACGCTCTTTTTCTACATTAGTTTCT
1 TGCACTGTTAGCAAAAGTACTGAAAAAAGCTCTCCCCTGGACGCTCTTTTTCTACAGCAGTTTCT
* * * *
46161529 -AAA-ATAATAATTTTGAA-AAGATGGTTCTAAAATAA-AGGGTCAAAAGCGCTTCAAGTAGGA
66 GAAACA-AATAATTTT-AAGAAGATGGTTCTAAAAAAATAGGATAAAAAACGCTTCAAGTAGGA
* * * *
46161589 TGCACAGTCAGCAAAAGTACTGAAAAAAACTCTCCCCTGGAAGCTCTTTTTCTACAGCAGTTTCT
1 TGCACTGTTAGCAAAAGTACTGAAAAAAGCTCTCCCCTGGACGCTCTTTTTCTACAGCAGTTTCT
46161654 GAAACAAATAATTTTAAGAAGATGGTTCTAAAAAAATAGGATAAAAAACGCTTCAAGTAGGA
66 GAAACAAATAATTTTAAGAAGATGGTTCTAAAAAAATAGGATAAAAAACGCTTCAAGTAGGA
*
46161716 TGCACTGTTAGCAAAAGTACTGAAAAAAGCTC-CCACCTAGACGCTCTTTTTCTA
1 TGCACTGTTAGCAAAAGTACTGAAAAAAGCTCTCC-CCTGGACGCTCTTTTTCTA
46161770 TGGTACATCC
Statistics
Matches: 157, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
124 19 0.12
125 38 0.24
126 31 0.20
127 69 0.44
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (127 bp):
TGCACTGTTAGCAAAAGTACTGAAAAAAGCTCTCCCCTGGACGCTCTTTTTCTACAGCAGTTTCT
GAAACAAATAATTTTAAGAAGATGGTTCTAAAAAAATAGGATAAAAAACGCTTCAAGTAGGA
Found at i:46166868 original size:62 final size:61
Alignment explanation
Indices: 46166787--46166969 Score: 187
Period size: 64 Copynumber: 3.0 Consensus size: 61
46166777 CTATTGCCTT
* * *
46166787 ATTCAAAAGAGCTTTTATTTTATTAAATAGGACAAAATATAAAAATAA-TTGACTACTAAA-AC
1 ATTCAAAAAAACTTCTATTTTATTAAATAGGACAAAATATAAAAATAATTTG--TAC-AAATAC
* *
46166849 ATTCAAAAAAACTTCTATTTTATATTAAATAGGACAAAATGTAAAAATAATTTGTACAAATAT
1 ATTCAAAAAAACTTCTA-TTT-TATTAAATAGGACAAAATATAAAAATAATTTGTACAAATAC
* ** * *
46166912 ATTCAAAACAACTTCTATTTTACGAAAT--GA-AACAATATAAAAATAGTTTTTACAAATA
1 ATTCAAAAAAACTTCTATTTTATTAAATAGGACAA-AATATAAAAATAATTTGTACAAATA
46166970 AATTTTAAAA
Statistics
Matches: 105, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
58 2 0.02
59 24 0.23
61 6 0.06
62 20 0.19
63 23 0.22
64 27 0.26
65 3 0.03
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (61 bp):
ATTCAAAAAAACTTCTATTTTATTAAATAGGACAAAATATAAAAATAATTTGTACAAATAC
Found at i:46168986 original size:19 final size:19
Alignment explanation
Indices: 46168921--46168992 Score: 67
Period size: 19 Copynumber: 3.6 Consensus size: 19
46168911 GACTTTTAAA
46168921 AAAAATTATAAGATAAATATTAAT
1 AAAAATTA-AA-AT-AATATT--T
* *
46168945 AAAAATT-ACATAA-ATTA
1 AAAAATTAAAATAATATTT
46168962 AAAAATTAAAATAATATTT
1 AAAAATTAAAATAATATTT
46168981 AAAAATTAAAAT
1 AAAAATTAAAAT
46168993 TAACCCTTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
17 7 0.17
18 5 0.12
19 18 0.43
20 2 0.05
21 2 0.05
22 1 0.02
24 7 0.17
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (19 bp):
AAAAATTAAAATAATATTT
Found at i:46169794 original size:29 final size:29
Alignment explanation
Indices: 46169732--46169790 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
46169722 AGTCGGTGGT
*
46169732 ATAAACTAAAGTACTTTATTTCAGAAAAA
1 ATAAACTAAAGTACTTTATTTCAAAAAAA
* *
46169761 ATAAACTAGAGTACTTT-TTTGAAAAAAA
1 ATAAACTAAAGTACTTTATTTCAAAAAAA
46169789 AT
1 AT
46169791 TAAAAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.32
Consensus pattern (29 bp):
ATAAACTAAAGTACTTTATTTCAAAAAAA
Found at i:46172856 original size:16 final size:16
Alignment explanation
Indices: 46172806--46172872 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 16
46172796 GGTTTATTGA
*
46172806 AATGGAATAGAGTTAT
1 AATGGAATAGAATTAT
* *
46172822 AATGTAAT-GAAGTTGT
1 AATGGAATAGAA-TTAT
*
46172838 AATGGAATAGAACTAT
1 AATGGAATAGAATTAT
** *
46172854 AATAAAATAAAATTAT
1 AATGGAATAGAATTAT
46172870 AAT
1 AAT
46172873 TAGTAATTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
15 2 0.05
16 34 0.87
17 3 0.08
ACGTcount: A:0.51, C:0.01, G:0.16, T:0.31
Consensus pattern (16 bp):
AATGGAATAGAATTAT
Found at i:46173125 original size:39 final size:39
Alignment explanation
Indices: 46173068--46173144 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
46173058 TATTAAATAT
* * *
46173068 AATTTAATAATATTTTTAATATA-AATATTTTTATATTA
1 AATTTAATAAAATATTTAAAATATAATATTTTTATATTA
**
46173106 AATTATAATAAAATATTTAAAATATTTTATTTTTATATT
1 AATT-TAATAAAATATTTAAAATATAATATTTTTATATT
46173145 TTCTAAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 4 0.12
39 16 0.50
40 12 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (39 bp):
AATTTAATAAAATATTTAAAATATAATATTTTTATATTA
Found at i:46173130 original size:41 final size:41
Alignment explanation
Indices: 46173058--46173144 Score: 97
Period size: 40 Copynumber: 2.1 Consensus size: 41
46173048 ATAGGATTCT
**
46173058 TATTAAATATAATTTAATAATATTTTTAATATAAATATTTTTA
1 TATTAAATATAA-TTAATAATATTTAAAATAT-AATATTTTTA
**
46173101 TATTAAATTATAA-TAA-AATATTTAAAATATTTTATTTTTA
1 TATTAAA-TATAATTAATAATATTTAAAATATAATATTTTTA
46173141 TATT
1 TATT
46173145 TTCTAAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
40 12 0.31
41 12 0.31
42 3 0.08
43 7 0.18
44 5 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (41 bp):
TATTAAATATAATTAATAATATTTAAAATATAATATTTTTA
Found at i:46173466 original size:10 final size:11
Alignment explanation
Indices: 46173451--46173475 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
46173441 CAAAATTGCC
46173451 TTTTTTTTTGT
1 TTTTTTTTTGT
46173462 TTTTTTTTTGT
1 TTTTTTTTTGT
46173473 TTT
1 TTT
46173476 AGTTATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:46179235 original size:22 final size:22
Alignment explanation
Indices: 46179210--46179256 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
46179200 CATGTTAACG
46179210 AATAAATATAT-AAATATAAATA
1 AATAAATATATAAAATA-AAATA
**
46179232 AATATTTATATAAAATAAAATA
1 AATAAATATATAAAATAAAATA
46179254 AAT
1 AAT
46179257 TGAATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AATAAATATATAAAATAAAATA
Found at i:46179253 original size:18 final size:18
Alignment explanation
Indices: 46179210--46179250 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
46179200 CATGTTAACG
46179210 AATAAATATATAAATATA
1 AATAAATATATAAATATA
* *
46179228 AATAAATATTTATATA-A
1 AATAAATATATAAATATA
46179245 AATAAA
1 AATAAA
46179251 ATAAATTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AATAAATATATAAATATA
Found at i:46185560 original size:14 final size:14
Alignment explanation
Indices: 46185543--46185572 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
46185533 TAAAAATGAC
*
46185543 TTCTAGAAAATAAT
1 TTCTAAAAAATAAT
46185557 TTCTAAAAAATAAT
1 TTCTAAAAAATAAT
46185571 TT
1 TT
46185573 TGTTACAGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (14 bp):
TTCTAAAAAATAAT
Found at i:46195189 original size:16 final size:16
Alignment explanation
Indices: 46195158--46195194 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
46195148 ATGTGAATAA
46195158 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
46195174 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
46195190 TATTA
1 TATTA
46195195 AATGAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:46195295 original size:34 final size:36
Alignment explanation
Indices: 46195264--46195337 Score: 73
Period size: 36 Copynumber: 2.1 Consensus size: 36
46195254 ATGTTTAATA
* * *
46195264 ATATCAA-AA-AATATAATATTTTAAT-AATTTAAAA
1 ATATCAATAACAATAAAATATATT-ATCAATTTAATA
* *
46195298 ATAACAATAACAATAAAATATATTATCAATATAATA
1 ATATCAATAACAATAAAATATATTATCAATTTAATA
46195334 ATAT
1 ATAT
46195338 TAAGCTTGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
34 6 0.19
35 4 0.13
36 21 0.68
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (36 bp):
ATATCAATAACAATAAAATATATTATCAATTTAATA
Found at i:46196053 original size:33 final size:33
Alignment explanation
Indices: 46196006--46196077 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
46195996 CCCTATAGAA
*
46196006 AAGCACCGCTAAAACAATTTACGGTGTTTTGAT
1 AAGCACCGCTAAAACAATTTACGGCGTTTTGAT
*
46196039 AAGCGCCGCTAAAACAATTTACGGCGTTTTGAT
1 AAGCACCGCTAAAACAATTTACGGCGTTTTGAT
46196072 AAGCAC
1 AAGCAC
46196078 TGCAAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (33 bp):
AAGCACCGCTAAAACAATTTACGGCGTTTTGAT
Found at i:46196405 original size:29 final size:29
Alignment explanation
Indices: 46196363--46196419 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
46196353 AAAGTCTAAG
*
46196363 ATGGCGGATTCTGTGACTGCTGAAACATA
1 ATGGCAGATTCTGTGACTGCTGAAACATA
46196392 ATGGCAGATTCTGTGACTGCTGAAACAT
1 ATGGCAGATTCTGTGACTGCTGAAACAT
46196420 CTTCATCACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (29 bp):
ATGGCAGATTCTGTGACTGCTGAAACATA
Found at i:46199474 original size:23 final size:25
Alignment explanation
Indices: 46199444--46199508 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 25
46199434 GCTGATGGAC
*
46199444 AGTAAGCTCTAT-TGAGCTGA-AAT
1 AGTAAGCTCTATACGAGCTGAGAAT
*
46199467 AGTAAGCTC-ATACGAGTTGAGAAT
1 AGTAAGCTCTATACGAGCTGAGAAT
46199491 AGTAAGCTCT-TACGAGCT
1 AGTAAGCTCTATACGAGCT
46199509 AATATATCAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 2 0.06
23 15 0.42
24 19 0.53
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (25 bp):
AGTAAGCTCTATACGAGCTGAGAAT
Found at i:46217086 original size:22 final size:22
Alignment explanation
Indices: 46217047--46217088 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
46217037 ATCCAAGCTC
*
46217047 ATTAATGCAATGCTCTAAAAAT
1 ATTAATGCAATGATCTAAAAAT
46217069 ATTAATGCAAT-ATACTAAAA
1 ATTAATGCAATGAT-CTAAAA
46217089 TGCAACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (22 bp):
ATTAATGCAATGATCTAAAAAT
Found at i:46219875 original size:250 final size:250
Alignment explanation
Indices: 46219434--46219934 Score: 1002
Period size: 250 Copynumber: 2.0 Consensus size: 250
46219424 ACCACTATAT
46219434 CTAGCGGGCTTATTCCACCTATTCAAATAATATGTTATTTCAAAATTACAACAATGAAAAATAAA
1 CTAGCGGGCTTATTCCACCTATTCAAATAATATGTTATTTCAAAATTACAACAATGAAAAATAAA
46219499 AACGATAATGGTATTATCAAATGAATTTTACCATATTACAAGTGAGAATTTGTAAAGGAGTTCCA
66 AACGATAATGGTATTATCAAATGAATTTTACCATATTACAAGTGAGAATTTGTAAAGGAGTTCCA
46219564 CTCGGAGGCATAAAAATGGTAGTCGATACTATGCCTATGATTGAAGAAGGAGCATGTAACTAGCG
131 CTCGGAGGCATAAAAATGGTAGTCGATACTATGCCTATGATTGAAGAAGGAGCATGTAACTAGCG
46219629 AATTTAACTGTATTTGGTATTGTCACTTGACACATTTCTCTGTATAATATCACCA
196 AATTTAACTGTATTTGGTATTGTCACTTGACACATTTCTCTGTATAATATCACCA
46219684 CTAGCGGGCTTATTCCACCTATTCAAATAATATGTTATTTCAAAATTACAACAATGAAAAATAAA
1 CTAGCGGGCTTATTCCACCTATTCAAATAATATGTTATTTCAAAATTACAACAATGAAAAATAAA
46219749 AACGATAATGGTATTATCAAATGAATTTTACCATATTACAAGTGAGAATTTGTAAAGGAGTTCCA
66 AACGATAATGGTATTATCAAATGAATTTTACCATATTACAAGTGAGAATTTGTAAAGGAGTTCCA
46219814 CTCGGAGGCATAAAAATGGTAGTCGATACTATGCCTATGATTGAAGAAGGAGCATGTAACTAGCG
131 CTCGGAGGCATAAAAATGGTAGTCGATACTATGCCTATGATTGAAGAAGGAGCATGTAACTAGCG
46219879 AATTTAACTGTATTTGGTATTGTCACTTGACACATTTCTCTGTATAATATCACCA
196 AATTTAACTGTATTTGGTATTGTCACTTGACACATTTCTCTGTATAATATCACCA
46219934 C
1 C
46219935 CGCTAATCCC
Statistics
Matches: 251, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
250 251 1.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (250 bp):
CTAGCGGGCTTATTCCACCTATTCAAATAATATGTTATTTCAAAATTACAACAATGAAAAATAAA
AACGATAATGGTATTATCAAATGAATTTTACCATATTACAAGTGAGAATTTGTAAAGGAGTTCCA
CTCGGAGGCATAAAAATGGTAGTCGATACTATGCCTATGATTGAAGAAGGAGCATGTAACTAGCG
AATTTAACTGTATTTGGTATTGTCACTTGACACATTTCTCTGTATAATATCACCA
Found at i:46223143 original size:6 final size:6
Alignment explanation
Indices: 46223134--46223174 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
46223124 ACTAACATAT
* *
46223134 ATTGAT ATTGAT ATTGAA ATTGAA ATTGAA ATTGAA ATTGA
1 ATTGAA ATTGAA ATTGAA ATTGAA ATTGAA ATTGAA ATTGA
46223175 TCTTTGAGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.39
Consensus pattern (6 bp):
ATTGAA
Found at i:46227600 original size:92 final size:92
Alignment explanation
Indices: 46227443--46227626 Score: 368
Period size: 92 Copynumber: 2.0 Consensus size: 92
46227433 TAAGGTTTTA
46227443 TAGTTGTTAGTGTTGGAAGAGTACATACTGATTGGAATCTCACGTGATCGGTGATGTGCCGGACA
1 TAGTTGTTAGTGTTGGAAGAGTACATACTGATTGGAATCTCACGTGATCGGTGATGTGCCGGACA
46227508 TGATTTTCTGGATATGAGAACTTCAGG
66 TGATTTTCTGGATATGAGAACTTCAGG
46227535 TAGTTGTTAGTGTTGGAAGAGTACATACTGATTGGAATCTCACGTGATCGGTGATGTGCCGGACA
1 TAGTTGTTAGTGTTGGAAGAGTACATACTGATTGGAATCTCACGTGATCGGTGATGTGCCGGACA
46227600 TGATTTTCTGGATATGAGAACTTCAGG
66 TGATTTTCTGGATATGAGAACTTCAGG
46227627 GGAGCAACAA
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (92 bp):
TAGTTGTTAGTGTTGGAAGAGTACATACTGATTGGAATCTCACGTGATCGGTGATGTGCCGGACA
TGATTTTCTGGATATGAGAACTTCAGG
Found at i:46229427 original size:162 final size:163
Alignment explanation
Indices: 46229243--46229568 Score: 645
Period size: 162 Copynumber: 2.0 Consensus size: 163
46229233 TAAATTAAAA
46229243 TTATTTTGCGTTATTTGTGTTGTTCCAGGTTTGAATCATGTATGGTTAAAGTCATTTTAGAATTT
1 TTATTTTGCGTTATTTGTGTTGTTCCAGGTTTGAATCATGTATGGTTAAAGTCATTTTAGAATTT
46229308 AGGTTATTAATTTTTTTATAATAAGATAGAGTTGGCTCAAATTTGGATAGTACAAACTCTAATAT
66 AGGTTATTAATTTTTTTATAATAAGATAGAGTTGGCTCAAATTTGGATAGTACAAACTCTAATAT
46229373 AAAATGTACTGT-AAAAAATTAATATAAAATTT
131 AAAATGTACTGTAAAAAAATTAATATAAAATTT
46229405 TTATTTTGCGTTATTTGTGTTGTTCCAGGTTTGAATCATGTATGGTTAAAGTCATTTTAGAATTT
1 TTATTTTGCGTTATTTGTGTTGTTCCAGGTTTGAATCATGTATGGTTAAAGTCATTTTAGAATTT
46229470 AGGTTATTAATTTTTTTATAATAAGATAGAGTTGGCTCAAATTTGGATAGTACAAACTCTAATAT
66 AGGTTATTAATTTTTTTATAATAAGATAGAGTTGGCTCAAATTTGGATAGTACAAACTCTAATAT
46229535 AAAATGTACTGTAAAAAAATTAATATAAAATTT
131 AAAATGTACTGTAAAAAAATTAATATAAAATTT
46229568 T
1 T
46229569 AATGTCAAAA
Statistics
Matches: 163, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
162 142 0.87
163 21 0.13
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (163 bp):
TTATTTTGCGTTATTTGTGTTGTTCCAGGTTTGAATCATGTATGGTTAAAGTCATTTTAGAATTT
AGGTTATTAATTTTTTTATAATAAGATAGAGTTGGCTCAAATTTGGATAGTACAAACTCTAATAT
AAAATGTACTGTAAAAAAATTAATATAAAATTT
Found at i:46230515 original size:115 final size:115
Alignment explanation
Indices: 46230394--46230622 Score: 458
Period size: 115 Copynumber: 2.0 Consensus size: 115
46230384 AATTTAACAA
46230394 TAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAATTTAATTTTTATATGTGAGGATA
1 TAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAATTTAATTTTTATATGTGAGGATA
46230459 ATTTAATAATTTCATAATTTAGTTGATGTCCATTGACCCGCAACACCAAT
66 ATTTAATAATTTCATAATTTAGTTGATGTCCATTGACCCGCAACACCAAT
46230509 TAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAATTTAATTTTTATATGTGAGGATA
1 TAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAATTTAATTTTTATATGTGAGGATA
46230574 ATTTAATAATTTCATAATTTAGTTGATGTCCATTGACCCGCAACACCAA
66 ATTTAATAATTTCATAATTTAGTTGATGTCCATTGACCCGCAACACCAA
46230623 CTCGGTAAAA
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 114 1.00
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (115 bp):
TAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAATTTAATTTTTATATGTGAGGATA
ATTTAATAATTTCATAATTTAGTTGATGTCCATTGACCCGCAACACCAAT
Found at i:46230530 original size:324 final size:328
Alignment explanation
Indices: 46229910--46230568 Score: 1200
Period size: 324 Copynumber: 2.0 Consensus size: 328
46229900 AAGAAGCAAG
*
46229910 CAATAATGAATGGTAAAGACTTTTTCTTTGGTATGATGAATGGTAAAGACTTGATTGCGTCATTA
1 CAATAATGAATGGTAAAGACTTTTTCTTTGGTATGATGAATGGTAAAGACTTGATTGCATCATTA
46229975 TATTGGTGTGTTTTTTTAAAGTATTAAAAAACTATGTAATAAATGTATTTATTAAATTTTCATAT
66 TATTGGTGTGTTTTTTTAAAGTATTAAAAAACTATGTAATAAATGTATTTATTAAATTTTCATAT
46230040 AAAAATTAAATTTTGCTTTAGTTATAACAATAAAGTGCATTTTAAAGTTTTTATTGATATATTAT
131 AAAAATTAAA--------TAGTTATAACAATAAAGTGCATTTTAAAGTTTTTATTGATATATTAT
46230105 ATTATAATTTAATTTTTATATGTGAGGATAATTTAATAATTTCATAATTTAGTTGATGTCCATTG
188 ATTATAATTTAATTTTTATATGTGAGGATAATTTAATAATTTCATAATTTAGTTGATGTCCATTG
46230170 ACCCGCAACACCAACTAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAATTTAATTT
253 ACCCGCAACACCAACTAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAATTTAATTT
46230235 TTATATGTGAA
318 TTATATGTGAA
46230246 CAATAATGAATGGTAAAGACTTTTTCTTTGGTATGATGAATGGTAAAGACTTGATTGCATCATTA
1 CAATAATGAATGGTAAAGACTTTTTCTTTGGTATGATGAATGGTAAAGACTTGATTGCATCATTA
46230311 TATTGGTGTGTTTTTTTAAAGTATTAAAAAACTATGTAATAAATGTATTTATTAAATTTTCATAT
66 TATTGGTGTGTTTTTTTAAAGTATTAAAAAACTATGTAATAAATGTATTTATTAAATTTTCATAT
46230376 AAAAATT-AA-A-TT-TAACAATAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAAT
131 AAAAATTAAATAGTTATAACAATAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAAT
46230437 TTAATTTTTATATGTGAGGATAATTTAATAATTTCATAATTTAGTTGATGTCCATTGACCCGCAA
196 TTAATTTTTATATGTGAGGATAATTTAATAATTTCATAATTTAGTTGATGTCCATTGACCCGCAA
*
46230502 CACCAATTAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAATTTAATTTTTATATGT
261 CACCAACTAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAATTTAATTTTTATATGT
46230567 GA
326 GA
46230569 GGATAATTTA
Statistics
Matches: 321, Mismatches: 2, Indels: 12
0.96 0.01 0.04
Matches are distributed among these distances:
324 180 0.56
325 2 0.01
326 1 0.00
335 2 0.01
336 136 0.42
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (328 bp):
CAATAATGAATGGTAAAGACTTTTTCTTTGGTATGATGAATGGTAAAGACTTGATTGCATCATTA
TATTGGTGTGTTTTTTTAAAGTATTAAAAAACTATGTAATAAATGTATTTATTAAATTTTCATAT
AAAAATTAAATAGTTATAACAATAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAAT
TTAATTTTTATATGTGAGGATAATTTAATAATTTCATAATTTAGTTGATGTCCATTGACCCGCAA
CACCAACTAAAGTGCATTTTAAAGTTTTTATTGATATATTATATTATAATTTAATTTTTATATGT
GAA
Found at i:46232535 original size:55 final size:55
Alignment explanation
Indices: 46232475--46232578 Score: 172
Period size: 55 Copynumber: 1.9 Consensus size: 55
46232465 AAGATAATGG
* * **
46232475 GGTTTGTTTGTAATTTCTTATTATTCTTTTTTTTTGGTAGCTGCTGACATAATAT
1 GGTTTGTTTGTAATTTCCTATTATTCTGTTTTTTCAGTAGCTGCTGACATAATAT
46232530 GGTTTGTTTGTAATTTCCTATTATTCTGTTTTTTCAGTAGCTGCTGACA
1 GGTTTGTTTGTAATTTCCTATTATTCTGTTTTTTCAGTAGCTGCTGACA
46232579 CTGCAATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.17, C:0.12, G:0.17, T:0.54
Consensus pattern (55 bp):
GGTTTGTTTGTAATTTCCTATTATTCTGTTTTTTCAGTAGCTGCTGACATAATAT
Found at i:46232644 original size:82 final size:82
Alignment explanation
Indices: 46232549--46232713 Score: 321
Period size: 82 Copynumber: 2.0 Consensus size: 82
46232539 GTAATTTCCT
46232549 ATTATTCTGTTTTTTCAGTAGCTGCTGACACTGCAATTAATTTTTGCTTCGTAGGAGACAGCCTT
1 ATTATTCTGTTTTTTCAGTAGCTGCTGACACTGCAATTAATTTTTGCTTCGTAGGAGACAGCCTT
46232614 AATTCTTCATTAGTAGC
66 AATTCTTCATTAGTAGC
*
46232631 ATTATTCTGTTTTTTTAGTAGCTGCTGACACTGCAATTAATTTTTGCTTCGTAGGAGACAGCCTT
1 ATTATTCTGTTTTTTCAGTAGCTGCTGACACTGCAATTAATTTTTGCTTCGTAGGAGACAGCCTT
46232696 AATTCTTCATTAGTAGC
66 AATTCTTCATTAGTAGC
46232713 A
1 A
46232714 ATTGTGTCGG
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.42
Consensus pattern (82 bp):
ATTATTCTGTTTTTTCAGTAGCTGCTGACACTGCAATTAATTTTTGCTTCGTAGGAGACAGCCTT
AATTCTTCATTAGTAGC
Found at i:46233631 original size:49 final size:49
Alignment explanation
Indices: 46233577--46233675 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
46233567 TTATAAAATT
46233577 TTGATGGGCTGAAGCTAAATATATTGTGTTGAAAATACTTATATTTACA
1 TTGATGGGCTGAAGCTAAATATATTGTGTTGAAAATACTTATATTTACA
46233626 TTGATGGGCTGAAGCTAAATATATTGTGTTGAAAATACTTATATTTACA
1 TTGATGGGCTGAAGCTAAATATATTGTGTTGAAAATACTTATATTTACA
46233675 T
1 T
46233676 ATTGAAGGAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (49 bp):
TTGATGGGCTGAAGCTAAATATATTGTGTTGAAAATACTTATATTTACA
Found at i:46234188 original size:45 final size:45
Alignment explanation
Indices: 46234124--46234214 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
46234114 AGGGTCTTGG
46234124 ATTTAAATTTTAAAATTCAACCGTTTTTGTTCCTAGATTAAAATA
1 ATTTAAATTTTAAAATTCAACCGTTTTTGTTCCTAGATTAAAATA
*
46234169 ATTTAAATTTTAAAATTCAATCGTTTTTGTTCCTAGATTAAAATA
1 ATTTAAATTTTAAAATTCAACCGTTTTTGTTCCTAGATTAAAATA
46234214 A
1 A
46234215 AATATGTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (45 bp):
ATTTAAATTTTAAAATTCAACCGTTTTTGTTCCTAGATTAAAATA
Found at i:46238330 original size:41 final size:42
Alignment explanation
Indices: 46238222--46238425 Score: 196
Period size: 41 Copynumber: 4.8 Consensus size: 42
46238212 TGTTTTTGTT
* ** * * *
46238222 TAAGACCACGTCTGGGATGTTGGAATCAATATATGTGGTTACGTG
1 TAAGACCATGTCTGGGACATTGGCATCGATAT-T-TGATT-CGTG
*
46238267 TAAGACCATGTCTGGAACATTGGCATC-ATATTTGATTCGTG
1 TAAGACCATGTCTGGGACATTGGCATCGATATTTGATTCGTG
* * * * *
46238308 GAAGACCATGTTTGGGATATTGGCATCGATATATGTGGTTACATG
1 TAAGACCATGTCTGGGACATTGGCATCGATAT-T-TGATT-CGTG
**
46238353 TAAGACCATGTCTGGGACATCAGCATCG-TATTTGATTCGTG
1 TAAGACCATGTCTGGGACATTGGCATCGATATTTGATTCGTG
* *
46238394 TAAGACCCTGTCTGGGACAGTGGCATCGATAT
1 TAAGACCATGTCTGGGACATTGGCATCGATAT
46238426 GAGATAGCAT
Statistics
Matches: 131, Mismatches: 23, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
41 54 0.41
42 15 0.11
43 3 0.02
44 11 0.08
45 48 0.37
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATTGGCATCGATATTTGATTCGTG
Found at i:46238379 original size:86 final size:86
Alignment explanation
Indices: 46238223--46238425 Score: 280
Period size: 86 Copynumber: 2.4 Consensus size: 86
46238213 GTTTTTGTTT
* * * * * *
46238223 AAGACCACGTCTGGGATGTTGGAATCAATATATGTGGTTACGTGTAAGACCATGTCTGGAACATT
1 AAGACCATGTCTGGGATATTGGCATCGATATATGTGGTTACATGTAAGACCATGTCTGGAACATC
*
46238288 GGCATCATATTTGATTCGTGG
66 AGCATCATATTTGATTCGTGG
* *
46238309 AAGACCATGTTTGGGATATTGGCATCGATATATGTGGTTACATGTAAGACCATGTCTGGGACATC
1 AAGACCATGTCTGGGATATTGGCATCGATATATGTGGTTACATGTAAGACCATGTCTGGAACATC
* *
46238374 AGCATCGTATTTGATTCGTGT
66 AGCATCATATTTGATTCGTGG
* * *
46238395 AAGACCCTGTCTGGGACAGTGGCATCGATAT
1 AAGACCATGTCTGGGATATTGGCATCGATAT
46238426 GAGATAGCAT
Statistics
Matches: 102, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
86 102 1.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (86 bp):
AAGACCATGTCTGGGATATTGGCATCGATATATGTGGTTACATGTAAGACCATGTCTGGAACATC
AGCATCATATTTGATTCGTGG
Found at i:46241791 original size:44 final size:42
Alignment explanation
Indices: 46241645--46241803 Score: 124
Period size: 42 Copynumber: 3.7 Consensus size: 42
46241635 AGAACATATA
* * * * *
46241645 CAATGCCAACGTCCCAAACGTGGTCTTACATGTAATCAA-ACAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAA--AACAAAT
* * * * * *
46241688 CGATGCCACTATCCCAGACAGGGTCTTACACG-AAACCAGAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAAAT
* *
46241729 ACGATGCCGATGTCCCAGACATGGTCTTACACGTAAAACATAAGT
1 -CAATGCCAATGTCCCAGACATGGTCTTACACGTAAAACA-AA-T
**
46241774 CAATGCCAATGTCCCAGATGTGGTCTTACA
1 CAATGCCAATGTCCCAGACATGGTCTTACA
46241804 TGAAATCACA
Statistics
Matches: 91, Mismatches: 20, Indels: 9
0.76 0.17 0.08
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 30 0.33
43 29 0.32
44 27 0.30
45 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (42 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACGTAAAACAAAT
Found at i:46242447 original size:42 final size:42
Alignment explanation
Indices: 46242388--46242492 Score: 167
Period size: 42 Copynumber: 2.5 Consensus size: 42
46242378 ACAGGGGTGT
* *
46242388 TCACACGACCAAGCACACGCCTATGTTCCTGACTCGTGTCCC
1 TCACACGGCCAAGCACACGCCCATGTTCCTGACTCGTGTCCC
*
46242430 TCACACGGCCAAGCACACGCCCGTGTTCCTGACTCGTGTCCC
1 TCACACGGCCAAGCACACGCCCATGTTCCTGACTCGTGTCCC
*
46242472 TCACACGGCCTAG-ACACGCCC
1 TCACACGGCCAAGCACACGCCC
46242493 GTGTCCAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 8 0.14
42 51 0.86
ACGTcount: A:0.20, C:0.43, G:0.19, T:0.18
Consensus pattern (42 bp):
TCACACGGCCAAGCACACGCCCATGTTCCTGACTCGTGTCCC
Found at i:46251364 original size:41 final size:41
Alignment explanation
Indices: 46251262--46251464 Score: 165
Period size: 41 Copynumber: 4.8 Consensus size: 41
46251252 ATGTGTTTTA
* * * * *
46251262 GTGTAGGACCACGTCTAGGACATTGGCATCAATATACGTGGTTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATC-GTAT--TTGATT-C
* *
46251307 GTGTAAGACCATGTCTGGGATATTGGCATCGTATTTGATTC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTC
* * * * *
46251348 ATGTAAGGCCACGTCTGAGACGTTGGCATCGATATATGTGGTTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCG-TAT-T-TGATT-C
* ***
46251393 GTGTAAGACCATGTCTGGGACATCAACATCGTATTTGATTC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTC
*
46251434 GTGTAAGACC-CTGTCTGGGACAATGGCATCG
1 GTGTAAGACCAC-GTCTGGGACATTGGCATCG
46251465 ATATGAGATA
Statistics
Matches: 125, Mismatches: 28, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
41 52 0.42
42 11 0.09
43 2 0.02
44 10 0.08
45 50 0.40
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (41 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTC
Found at i:46251423 original size:86 final size:86
Alignment explanation
Indices: 46251263--46251468 Score: 272
Period size: 86 Copynumber: 2.4 Consensus size: 86
46251253 TGTGTTTTAG
* *
46251263 TGTAGGACCACGTCT-AGGACATTGGCATCAATATACGTGGTTACGTGTAAGACCATGTCTGGGA
1 TGTAAGACCACGTCTGA-GACATTGGCATCGATATACGTGGTTACGTGTAAGACCATGTCTGGGA
* ***
46251327 TATTGGCATCGTATTTGATTCA
65 CATCAACATCGTATTTGATTCA
* * *
46251349 TGTAAGGCCACGTCTGAGACGTTGGCATCGATATATGTGGTTACGTGTAAGACCATGTCTGGGAC
1 TGTAAGACCACGTCTGAGACATTGGCATCGATATACGTGGTTACGTGTAAGACCATGTCTGGGAC
*
46251414 ATCAACATCGTATTTGATTCG
66 ATCAACATCGTATTTGATTCA
* *
46251435 TGTAAGACC-CTGTCTGGGACAATGGCATCGATAT
1 TGTAAGACCAC-GTCTGAGACATTGGCATCGATAT
46251469 GAGATAGTAT
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
85 1 0.01
86 102 0.98
87 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (86 bp):
TGTAAGACCACGTCTGAGACATTGGCATCGATATACGTGGTTACGTGTAAGACCATGTCTGGGAC
ATCAACATCGTATTTGATTCA
Found at i:46260009 original size:40 final size:37
Alignment explanation
Indices: 46259965--46260135 Score: 144
Period size: 38 Copynumber: 4.5 Consensus size: 37
46259955 GAATCCAGTC
* *
46259965 ACCAGCAAAAAACCTGCGGGACTTTAAGCTCAGATATAAT
1 ACCAGCACAAAGCCTGCGGGA-TTTAA-C-CAGATATAAT
* * * *
46260005 ACCAGCACTAGGCCTACGGGATTTAACCCGGATATAAT
1 ACCAGCACAAAGCCTGCGGGATTTAA-CCAGATATAAT
* * *
46260043 ACCAGCACGAAGCCTGTGGGATTTAACCCGAATATAAT
1 ACCAGCACAAAGCCTGCGGGATTTAACCAG-ATATAAT
* * * *
46260081 ACCAGCACGAAGCCTACGGGATTTAACCTGGATATATT
1 ACCAGCACAAAGCCTGCGGGATTTAACC-AGATATAAT
* * *
46260119 TCCAGCATATAGCCTGC
1 ACCAGCACAAAGCCTGC
46260136 AGGTCTTTAA
Statistics
Matches: 108, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
37 3 0.03
38 82 0.76
39 7 0.06
40 16 0.15
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (37 bp):
ACCAGCACAAAGCCTGCGGGATTTAACCAGATATAAT
Found at i:46260133 original size:38 final size:38
Alignment explanation
Indices: 46259997--46260125 Score: 186
Period size: 38 Copynumber: 3.4 Consensus size: 38
46259987 TTTAAGCTCA
* *
46259997 GATATAATACCAGCACTAGGCCTACGGGATTTAACCCG
1 GATATAATACCAGCACGAAGCCTACGGGATTTAACCCG
**
46260035 GATATAATACCAGCACGAAGCCTGTGGGATTTAACCCG
1 GATATAATACCAGCACGAAGCCTACGGGATTTAACCCG
* *
46260073 AATATAATACCAGCACGAAGCCTACGGGATTTAACCTG
1 GATATAATACCAGCACGAAGCCTACGGGATTTAACCCG
* *
46260111 GATATATTTCCAGCA
1 GATATAATACCAGCA
46260126 TATAGCCTGC
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 80 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (38 bp):
GATATAATACCAGCACGAAGCCTACGGGATTTAACCCG
Found at i:46267675 original size:38 final size:38
Alignment explanation
Indices: 46267598--46267771 Score: 206
Period size: 38 Copynumber: 4.5 Consensus size: 38
46267588 GAATCCAGTC
* * * *
46267598 ACCAGCACAAAACCTGCGGGACTTTAAGCTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
* * * *
46267638 ACCAGCACTAGGCTTGCGAGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
46267676 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* *
46267714 ACTAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* *
46267752 TCCAGCA-TATAGCCTGCGGG
1 ACCAGCACGA-AGCCTGCGGG
46267772 TCTTTAAGCC
Statistics
Matches: 117, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
37 1 0.01
38 95 0.81
39 5 0.04
40 16 0.14
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.21
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:46267737 original size:76 final size:78
Alignment explanation
Indices: 46267598--46267787 Score: 240
Period size: 76 Copynumber: 2.5 Consensus size: 78
46267588 GAATCCAGTC
* * * * *
46267598 ACCAGCACAAAACCTGCGGGACTTTAAGCTCAGATATAATACCAGCACTAGGCTTGCGAGATTTA
1 ACCAGCACAAAGCCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTGCGAGATTTA
46267663 ACCCGGATATAAT
66 ACCCGGATATAAT
* * * *
46267676 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAATACTAGCACGAAGCCTGCGGGATTTA
1 ACCAGCACAAAGCCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTGCGAGATTTA
*
46267739 ACCCGGATATATT
66 ACCCGGATATAAT
* * * *
46267752 TCCAGCATATAGCCTGCGGGTCTTTAAGCCCAGATA
1 ACCAGCACAAAGCCTGCGGGACTTTAAGCCCAGATA
46267788 CACATTAAAT
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
76 58 0.62
77 10 0.11
78 26 0.28
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (78 bp):
ACCAGCACAAAGCCTGCGGGACTTTAAGCCCAGATATAATACCAGCACGAAGCCTGCGAGATTTA
ACCCGGATATAAT
Found at i:46271407 original size:21 final size:21
Alignment explanation
Indices: 46271382--46271421 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46271372 TCTTCTGTTC
* *
46271382 TTTTCTTTATTGTTTTGGGAA
1 TTTTCTTTAATGGTTTGGGAA
46271403 TTTTCTTTAATGGTTTGGG
1 TTTTCTTTAATGGTTTGGG
46271422 TTGCTGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.05, G:0.23, T:0.60
Consensus pattern (21 bp):
TTTTCTTTAATGGTTTGGGAA
Found at i:46271928 original size:151 final size:150
Alignment explanation
Indices: 46271729--46272028 Score: 539
Period size: 151 Copynumber: 2.0 Consensus size: 150
46271719 TCATTATTGA
*
46271729 AATTGGTTGTGTTAATTGTCAATTTAGGTTTTGGGATTACTCGTGTTTGAATCAACATCATAAAA
1 AATTGGTTGTGTTAATTGTCAATTTAGGTTTTGGGATTACTCGTGTTTGAAACAACATCATAAAA
46271794 TACTCAAGTGTGTATCGAAAACACGAAAAAATAGTAATCGACAAAAGCTGAAAAAGTTCACTGTC
66 TACTCAAGTGTGTATCGAAAACACG-AAAAATAGTAATCGACAAAAGCTGAAAAAGTTCACTGTC
* *
46271859 AATGCTACATGGCCGTGTGTG
130 AACGCTACATGACCGTGTGTG
46271880 AATTGGTTGTGTTAATT-TCCAATTTAGGTTTTGGGATTACTCGTGTTTGAAACAACATCATAAA
1 AATTGGTTGTGTTAATTGT-CAATTTAGGTTTTGGGATTACTCGTGTTTGAAACAACATCATAAA
*
46271944 ATACTCAAGTGTGTATCGAAAACACGAAAAATAGTAATCGACGAAAGCTGAAAAAGTTCACTGTC
65 ATACTCAAGTGTGTATCGAAAACACGAAAAATAGTAATCGACAAAAGCTGAAAAAGTTCACTGTC
46272009 AACGCTACATGACCGTGTGT
130 AACGCTACATGACCGTGTGT
46272029 CACACATGGC
Statistics
Matches: 144, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
150 57 0.40
151 87 0.60
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.31
Consensus pattern (150 bp):
AATTGGTTGTGTTAATTGTCAATTTAGGTTTTGGGATTACTCGTGTTTGAAACAACATCATAAAA
TACTCAAGTGTGTATCGAAAACACGAAAAATAGTAATCGACAAAAGCTGAAAAAGTTCACTGTCA
ACGCTACATGACCGTGTGTG
Found at i:46276787 original size:31 final size:31
Alignment explanation
Indices: 46276749--46276860 Score: 104
Period size: 32 Copynumber: 3.5 Consensus size: 31
46276739 AAGGTATGTG
*
46276749 TATATATAATATATATAGGGATTT-TGTTATT
1 TATATATAATATATAT-GGGATTTGTGTTATA
* *
46276780 TATATATAATTTATATGGGTTTTGGTGTTATA
1 TATATATAATATATATGGGATTT-GTGTTATA
**
46276812 TATATCATAATATATATGTGTGCATGGGTG-T-TA
1 TATAT-ATAATATATATG-G-G-ATTTGTGTTATA
46276845 TATATATAATATATAT
1 TATATATAATATATAT
46276861 TTACGTGCAT
Statistics
Matches: 68, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
30 6 0.09
31 15 0.22
32 22 0.32
33 18 0.26
34 2 0.03
35 4 0.06
36 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.49
Consensus pattern (31 bp):
TATATATAATATATATGGGATTTGTGTTATA
Found at i:46276794 original size:29 final size:31
Alignment explanation
Indices: 46276749--46276852 Score: 93
Period size: 31 Copynumber: 3.2 Consensus size: 31
46276739 AAGGTATGTG
* *
46276749 TATATATAATATATATAGGGATTT-TGTTATT
1 TATATATAATTTATAT-GGGATTTGTGTTATA
*
46276780 TATATATAATTTATATGGGTTTTGGTGTTATA
1 TATATATAATTTATATGGGATTT-GTGTTATA
* **
46276812 TATATCATAATATATATGTGTGCATGGGTGTTATA
1 TATAT-ATAATTTATATG-G-G-ATTTGTGTTATA
46276847 TATATA
1 TATATA
46276853 ATATATATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
30 6 0.10
31 15 0.25
32 11 0.18
33 11 0.18
34 2 0.03
35 14 0.23
36 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (31 bp):
TATATATAATTTATATGGGATTTGTGTTATA
Found at i:46276869 original size:34 final size:34
Alignment explanation
Indices: 46276803--46276892 Score: 117
Period size: 34 Copynumber: 2.6 Consensus size: 34
46276793 TATGGGTTTT
* ** *
46276803 GGTGTTATATATATCATAATATATATGTGTGCATG
1 GGTGTTATATATATAAT-ATATATATACGTGCATA
*
46276838 GGTGTTATATATATAATATATATTTACGTGCATA
1 GGTGTTATATATATAATATATATATACGTGCATA
*
46276872 GGTGTTATATGTATAATATAT
1 GGTGTTATATATATAATATAT
46276893 GTGTCTGGTC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
34 33 0.67
35 16 0.33
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.44
Consensus pattern (34 bp):
GGTGTTATATATATAATATATATATACGTGCATA
Found at i:46279653 original size:29 final size:28
Alignment explanation
Indices: 46279617--46279694 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
46279607 TCATGAGATT
46279617 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
46279647 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
46279674 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
46279695 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:46279968 original size:173 final size:174
Alignment explanation
Indices: 46279647--46279973 Score: 566
Period size: 173 Copynumber: 1.9 Consensus size: 174
46279637 AAATTGTACA
* *
46279647 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
46279712 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
46279777 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
46279821 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
*
46279886 TGTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
46279950 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
46279974 ACCTTGAGTT
Statistics
Matches: 144, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
173 80 0.56
174 64 0.44
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:46283767 original size:47 final size:47
Alignment explanation
Indices: 46283716--46284255 Score: 891
Period size: 47 Copynumber: 11.4 Consensus size: 47
46283706 TTGTGATGTG
*
46283716 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
46283763 AGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
46283810 AGTGTATATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
46283859 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
46283906 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
46283953 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
46284000 ATTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
46284047 AGTGTATATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
46284096 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
46284143 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * *
46284190 AGTGTATACATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
46284237 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
46284256 TCCCGAAGGG
Statistics
Matches: 463, Mismatches: 26, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 374 0.81
49 89 0.19
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:46283931 original size:190 final size:189
Alignment explanation
Indices: 46283716--46284255 Score: 904
Period size: 190 Copynumber: 2.9 Consensus size: 189
46283706 TTGTGATGTG
*
46283716 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * *
46283781 GACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCGATG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGT-TATATATGTGATAAGGCCGAATGGCCAATG
46283846 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
130 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
46283906 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
46283971 GGCCTAATAGCCGATGTGATGAATGTGAAATTG-TATATATGTGATAAGGCCGAATGGCCAATGT
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTATATATGTGATAAGGCCGAATGGCCAATGT
*
46284035 GATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
131 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
46284096 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * * *
46284161 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATACATGTGACAGGGCCGAGTGGCCAACGT
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTATATATGTGATAAGGCCGAATGGCCAATGT
* *
46284225 GATGGATGTGAAAGTGTATAAATGTGATAAG
131 GATGAATGTGAAAGTGTATATATGTGATAAG
46284256 TCCCGAAGGG
Statistics
Matches: 330, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
188 57 0.17
190 273 0.83
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (189 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTATATATGTGATAAGGCCGAATGGCCAATGT
GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:46284090 original size:237 final size:237
Alignment explanation
Indices: 46283716--46284255 Score: 954
Period size: 237 Copynumber: 2.3 Consensus size: 237
46283706 TTGTGATGTG
46283716 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
46283781 GACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCGATG
66 GACCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCGATG
46283846 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
131 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
46283911 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
196 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
46283953 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAATTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
46284018 GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCGATG
66 GACCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCGATG
46284083 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
131 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
46284148 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
196 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * * * *
46284190 AGTGTATACATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
46284255 G
66 G
46284256 TCCCGAAGGG
Statistics
Matches: 288, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
237 288 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (237 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GACCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCGATG
TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:46284430 original size:37 final size:37
Alignment explanation
Indices: 46284374--46284452 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
46284364 CCGAGCTCTA
* * * *
46284374 AAGACCCGATGACTACGTGTGGGGATTTTGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
46284411 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
46284448 AAGAC
1 AAGAC
46284453 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:46286324 original size:16 final size:18
Alignment explanation
Indices: 46286292--46286330 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
46286282 CCAATATATC
46286292 ATTGTGTTGAGTATGTAA
1 ATTGTGTTGAGTATGTAA
*
46286310 TTTGTGTT-A-TATGTAA
1 ATTGTGTTGAGTATGTAA
46286326 ATTGT
1 ATTGT
46286331 TAAAGTATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 11 0.58
17 1 0.05
18 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (18 bp):
ATTGTGTTGAGTATGTAA
Found at i:46289407 original size:18 final size:18
Alignment explanation
Indices: 46289386--46289420 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
46289376 TTGATTTTTG
*
46289386 AATTCAAATAACTTGAAT
1 AATTCAAATAAATTGAAT
46289404 AATTCAAATAAATTGAA
1 AATTCAAATAAATTGAA
46289421 CAACAAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.31
Consensus pattern (18 bp):
AATTCAAATAAATTGAAT
Found at i:46297321 original size:41 final size:41
Alignment explanation
Indices: 46297267--46297384 Score: 184
Period size: 41 Copynumber: 2.9 Consensus size: 41
46297257 GCGAATCAAA
*
46297267 ATAGCTTCGGCTATGAAAGGAAATTAGTGTGCGAGACTGAG
1 ATAGCTTCGGCTATGAAAGGAACTTAGTGTGCGAGACTGAG
*
46297308 ATAGCTTCGGCTATGAAAGGCACTTAGTGTGCGAGACTGAG
1 ATAGCTTCGGCTATGAAAGGAACTTAGTGTGCGAGACTGAG
* *
46297349 ATAGTTTTGGCTATGAAA-GACACTTAGTGTGCGAGA
1 ATAGCTTCGGCTATGAAAGGA-ACTTAGTGTGCGAGA
46297385 TTATAATAGC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 1 0.01
41 70 0.99
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.26
Consensus pattern (41 bp):
ATAGCTTCGGCTATGAAAGGAACTTAGTGTGCGAGACTGAG
Found at i:46297403 original size:41 final size:41
Alignment explanation
Indices: 46297247--46297404 Score: 180
Period size: 41 Copynumber: 3.9 Consensus size: 41
46297237 CTATGTTTGG
*
46297247 CACTTAGTGTGCGA-A-TCAAAATAGCTTCGGCTATGAAAGGA
1 CACTTAGTGTGCGAGACT-GAAATAGCTTCGGCTATGAAA-GA
* * *
46297288 -AATTAGTGTGCGAGACTGAGATAGCTTCGGCTATGAAAGG
1 CACTTAGTGTGCGAGACTGAAATAGCTTCGGCTATGAAAGA
* * *
46297328 CACTTAGTGTGCGAGACTGAGATAGTTTTGGCTATGAAAGA
1 CACTTAGTGTGCGAGACTGAAATAGCTTCGGCTATGAAAGA
* *
46297369 CACTTAGTGTGCGAGA-TTATAATAGCTTCAGCTATG
1 CACTTAGTGTGCGAGACTGA-AATAGCTTCGGCTATG
46297405 TTTTGGAACT
Statistics
Matches: 100, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
40 15 0.15
41 84 0.84
42 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (41 bp):
CACTTAGTGTGCGAGACTGAAATAGCTTCGGCTATGAAAGA
Found at i:46300917 original size:44 final size:45
Alignment explanation
Indices: 46300857--46300952 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 45
46300847 CATTTCTATT
46300857 TCCATTTTGAGAAAACCACAATAATTT-TCAAATGATTT-CATTTC
1 TCCATTTTGAGAAAACCACAATAATTTCT-AAATGATTTCCATTTC
* * *
46300901 TCCATTTTG-GAGAAACCATAATTATTTCTAAATGTTTTCCATTTC
1 TCCATTTTGAGA-AAACCACAATAATTTCTAAATGATTTCCATTTC
*
46300946 TCTATTT
1 TCCATTT
46300953 CTATTTATTC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
43 2 0.04
44 30 0.67
45 13 0.29
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.44
Consensus pattern (45 bp):
TCCATTTTGAGAAAACCACAATAATTTCTAAATGATTTCCATTTC
Found at i:46308180 original size:6 final size:6
Alignment explanation
Indices: 46308128--46308192 Score: 51
Period size: 6 Copynumber: 10.5 Consensus size: 6
46308118 AATAAATAAA
* * * *
46308128 TTTTAT CTTTAT CTTTAT GTTTAT TTTT-C TTTTATT TTTTATCT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T TTTTA--T TTTTAT
*
46308178 TTTTAT TTTGAT TTT
1 TTTTAT TTTTAT TTT
46308193 AATTACATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
5 4 0.08
6 34 0.69
7 5 0.10
8 6 0.12
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:46308273 original size:18 final size:17
Alignment explanation
Indices: 46308239--46308277 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
46308229 AATAAATGGG
46308239 TAAATAGAAATAATAAT
1 TAAATAGAAATAATAAT
* *
46308256 ATAAATAGAACTACTAAT
1 -TAAATAGAAATAATAAT
46308274 TAAA
1 TAAA
46308278 ATAAAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (17 bp):
TAAATAGAAATAATAAT
Found at i:46311561 original size:38 final size:38
Alignment explanation
Indices: 46311495--46311721 Score: 310
Period size: 38 Copynumber: 5.9 Consensus size: 38
46311485 CACTCGATAC
*
46311495 ATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* ** *
46311533 ATATCAGGGTTAAATCCTACAGGTTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
** *
46311571 ATATAAGGTTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
46311609 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * * *
46311647 ATATCCGGGTTAAATCTCGCAGGCTTAGTGCTAGTACT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* *
46311685 ATATCCGAGCTTAAAGTCCCGCAGGCTTTGTGCTGGT
1 ATATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGT
46311722 GATTGGATTC
Statistics
Matches: 166, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
38 142 0.86
39 6 0.04
40 18 0.11
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Done.